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Research Paper – Structure, Examples and Writing Guide

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Research Paper

Definition:

Research Paper is a written document that presents the author’s original research, analysis, and interpretation of a specific topic or issue.

It is typically based on Empirical Evidence, and may involve qualitative or quantitative research methods, or a combination of both. The purpose of a research paper is to contribute new knowledge or insights to a particular field of study, and to demonstrate the author’s understanding of the existing literature and theories related to the topic.

Structure of Research Paper

The structure of a research paper typically follows a standard format, consisting of several sections that convey specific information about the research study. The following is a detailed explanation of the structure of a research paper:

The title page contains the title of the paper, the name(s) of the author(s), and the affiliation(s) of the author(s). It also includes the date of submission and possibly, the name of the journal or conference where the paper is to be published.

The abstract is a brief summary of the research paper, typically ranging from 100 to 250 words. It should include the research question, the methods used, the key findings, and the implications of the results. The abstract should be written in a concise and clear manner to allow readers to quickly grasp the essence of the research.

Introduction

The introduction section of a research paper provides background information about the research problem, the research question, and the research objectives. It also outlines the significance of the research, the research gap that it aims to fill, and the approach taken to address the research question. Finally, the introduction section ends with a clear statement of the research hypothesis or research question.

Literature Review

The literature review section of a research paper provides an overview of the existing literature on the topic of study. It includes a critical analysis and synthesis of the literature, highlighting the key concepts, themes, and debates. The literature review should also demonstrate the research gap and how the current study seeks to address it.

The methods section of a research paper describes the research design, the sample selection, the data collection and analysis procedures, and the statistical methods used to analyze the data. This section should provide sufficient detail for other researchers to replicate the study.

The results section presents the findings of the research, using tables, graphs, and figures to illustrate the data. The findings should be presented in a clear and concise manner, with reference to the research question and hypothesis.

The discussion section of a research paper interprets the findings and discusses their implications for the research question, the literature review, and the field of study. It should also address the limitations of the study and suggest future research directions.

The conclusion section summarizes the main findings of the study, restates the research question and hypothesis, and provides a final reflection on the significance of the research.

The references section provides a list of all the sources cited in the paper, following a specific citation style such as APA, MLA or Chicago.

How to Write Research Paper

You can write Research Paper by the following guide:

• Choose a Topic: The first step is to select a topic that interests you and is relevant to your field of study. Brainstorm ideas and narrow down to a research question that is specific and researchable.
• Conduct a Literature Review: The literature review helps you identify the gap in the existing research and provides a basis for your research question. It also helps you to develop a theoretical framework and research hypothesis.
• Develop a Thesis Statement : The thesis statement is the main argument of your research paper. It should be clear, concise and specific to your research question.
• Plan your Research: Develop a research plan that outlines the methods, data sources, and data analysis procedures. This will help you to collect and analyze data effectively.
• Collect and Analyze Data: Collect data using various methods such as surveys, interviews, observations, or experiments. Analyze data using statistical tools or other qualitative methods.
• Organize your Paper : Organize your paper into sections such as Introduction, Literature Review, Methods, Results, Discussion, and Conclusion. Ensure that each section is coherent and follows a logical flow.
• Write your Paper : Start by writing the introduction, followed by the literature review, methods, results, discussion, and conclusion. Ensure that your writing is clear, concise, and follows the required formatting and citation styles.
• Edit and Proofread your Paper: Review your paper for grammar and spelling errors, and ensure that it is well-structured and easy to read. Ask someone else to review your paper to get feedback and suggestions for improvement.
• Cite your Sources: Ensure that you properly cite all sources used in your research paper. This is essential for giving credit to the original authors and avoiding plagiarism.

Research Paper Example

Note : The below example research paper is for illustrative purposes only and is not an actual research paper. Actual research papers may have different structures, contents, and formats depending on the field of study, research question, data collection and analysis methods, and other factors. Students should always consult with their professors or supervisors for specific guidelines and expectations for their research papers.

Research Paper Example sample for Students:

Title: The Impact of Social Media on Mental Health among Young Adults

Abstract: This study aims to investigate the impact of social media use on the mental health of young adults. A literature review was conducted to examine the existing research on the topic. A survey was then administered to 200 university students to collect data on their social media use, mental health status, and perceived impact of social media on their mental health. The results showed that social media use is positively associated with depression, anxiety, and stress. The study also found that social comparison, cyberbullying, and FOMO (Fear of Missing Out) are significant predictors of mental health problems among young adults.

Introduction: Social media has become an integral part of modern life, particularly among young adults. While social media has many benefits, including increased communication and social connectivity, it has also been associated with negative outcomes, such as addiction, cyberbullying, and mental health problems. This study aims to investigate the impact of social media use on the mental health of young adults.

Literature Review: The literature review highlights the existing research on the impact of social media use on mental health. The review shows that social media use is associated with depression, anxiety, stress, and other mental health problems. The review also identifies the factors that contribute to the negative impact of social media, including social comparison, cyberbullying, and FOMO.

Methods : A survey was administered to 200 university students to collect data on their social media use, mental health status, and perceived impact of social media on their mental health. The survey included questions on social media use, mental health status (measured using the DASS-21), and perceived impact of social media on their mental health. Data were analyzed using descriptive statistics and regression analysis.

Results : The results showed that social media use is positively associated with depression, anxiety, and stress. The study also found that social comparison, cyberbullying, and FOMO are significant predictors of mental health problems among young adults.

Discussion : The study’s findings suggest that social media use has a negative impact on the mental health of young adults. The study highlights the need for interventions that address the factors contributing to the negative impact of social media, such as social comparison, cyberbullying, and FOMO.

Conclusion : In conclusion, social media use has a significant impact on the mental health of young adults. The study’s findings underscore the need for interventions that promote healthy social media use and address the negative outcomes associated with social media use. Future research can explore the effectiveness of interventions aimed at reducing the negative impact of social media on mental health. Additionally, longitudinal studies can investigate the long-term effects of social media use on mental health.

Limitations : The study has some limitations, including the use of self-report measures and a cross-sectional design. The use of self-report measures may result in biased responses, and a cross-sectional design limits the ability to establish causality.

Implications: The study’s findings have implications for mental health professionals, educators, and policymakers. Mental health professionals can use the findings to develop interventions that address the negative impact of social media use on mental health. Educators can incorporate social media literacy into their curriculum to promote healthy social media use among young adults. Policymakers can use the findings to develop policies that protect young adults from the negative outcomes associated with social media use.

References :

• Twenge, J. M., & Campbell, W. K. (2019). Associations between screen time and lower psychological well-being among children and adolescents: Evidence from a population-based study. Preventive medicine reports, 15, 100918.
• Primack, B. A., Shensa, A., Escobar-Viera, C. G., Barrett, E. L., Sidani, J. E., Colditz, J. B., … & James, A. E. (2017). Use of multiple social media platforms and symptoms of depression and anxiety: A nationally-representative study among US young adults. Computers in Human Behavior, 69, 1-9.
• Van der Meer, T. G., & Verhoeven, J. W. (2017). Social media and its impact on academic performance of students. Journal of Information Technology Education: Research, 16, 383-398.

Appendix : The survey used in this study is provided below.

Social Media and Mental Health Survey

• How often do you use social media per day?
• Less than 30 minutes
• 30 minutes to 1 hour
• 1 to 2 hours
• 2 to 4 hours
• More than 4 hours
• Which social media platforms do you use?
• Others (Please specify)
• How often do you experience the following on social media?
• Social comparison (comparing yourself to others)
• Cyberbullying
• Fear of Missing Out (FOMO)
• Have you ever experienced any of the following mental health problems in the past month?
• Do you think social media use has a positive or negative impact on your mental health?
• Very positive
• Somewhat positive
• Somewhat negative
• Very negative
• In your opinion, which factors contribute to the negative impact of social media on mental health?
• Social comparison
• In your opinion, what interventions could be effective in reducing the negative impact of social media on mental health?
• Education on healthy social media use
• Counseling for mental health problems caused by social media
• Social media detox programs
• Regulation of social media use

Thank you for your participation!

Applications of Research Paper

Research papers have several applications in various fields, including:

• Advancing knowledge: Research papers contribute to the advancement of knowledge by generating new insights, theories, and findings that can inform future research and practice. They help to answer important questions, clarify existing knowledge, and identify areas that require further investigation.
• Informing policy: Research papers can inform policy decisions by providing evidence-based recommendations for policymakers. They can help to identify gaps in current policies, evaluate the effectiveness of interventions, and inform the development of new policies and regulations.
• Improving practice: Research papers can improve practice by providing evidence-based guidance for professionals in various fields, including medicine, education, business, and psychology. They can inform the development of best practices, guidelines, and standards of care that can improve outcomes for individuals and organizations.
• Educating students : Research papers are often used as teaching tools in universities and colleges to educate students about research methods, data analysis, and academic writing. They help students to develop critical thinking skills, research skills, and communication skills that are essential for success in many careers.
• Fostering collaboration: Research papers can foster collaboration among researchers, practitioners, and policymakers by providing a platform for sharing knowledge and ideas. They can facilitate interdisciplinary collaborations and partnerships that can lead to innovative solutions to complex problems.

When to Write Research Paper

Research papers are typically written when a person has completed a research project or when they have conducted a study and have obtained data or findings that they want to share with the academic or professional community. Research papers are usually written in academic settings, such as universities, but they can also be written in professional settings, such as research organizations, government agencies, or private companies.

Here are some common situations where a person might need to write a research paper:

• For academic purposes: Students in universities and colleges are often required to write research papers as part of their coursework, particularly in the social sciences, natural sciences, and humanities. Writing research papers helps students to develop research skills, critical thinking skills, and academic writing skills.
• For publication: Researchers often write research papers to publish their findings in academic journals or to present their work at academic conferences. Publishing research papers is an important way to disseminate research findings to the academic community and to establish oneself as an expert in a particular field.
• To inform policy or practice : Researchers may write research papers to inform policy decisions or to improve practice in various fields. Research findings can be used to inform the development of policies, guidelines, and best practices that can improve outcomes for individuals and organizations.
• To share new insights or ideas: Researchers may write research papers to share new insights or ideas with the academic or professional community. They may present new theories, propose new research methods, or challenge existing paradigms in their field.

Purpose of Research Paper

The purpose of a research paper is to present the results of a study or investigation in a clear, concise, and structured manner. Research papers are written to communicate new knowledge, ideas, or findings to a specific audience, such as researchers, scholars, practitioners, or policymakers. The primary purposes of a research paper are:

• To contribute to the body of knowledge : Research papers aim to add new knowledge or insights to a particular field or discipline. They do this by reporting the results of empirical studies, reviewing and synthesizing existing literature, proposing new theories, or providing new perspectives on a topic.
• To inform or persuade: Research papers are written to inform or persuade the reader about a particular issue, topic, or phenomenon. They present evidence and arguments to support their claims and seek to persuade the reader of the validity of their findings or recommendations.
• To advance the field: Research papers seek to advance the field or discipline by identifying gaps in knowledge, proposing new research questions or approaches, or challenging existing assumptions or paradigms. They aim to contribute to ongoing debates and discussions within a field and to stimulate further research and inquiry.
• To demonstrate research skills: Research papers demonstrate the author’s research skills, including their ability to design and conduct a study, collect and analyze data, and interpret and communicate findings. They also demonstrate the author’s ability to critically evaluate existing literature, synthesize information from multiple sources, and write in a clear and structured manner.

Characteristics of Research Paper

Research papers have several characteristics that distinguish them from other forms of academic or professional writing. Here are some common characteristics of research papers:

• Evidence-based: Research papers are based on empirical evidence, which is collected through rigorous research methods such as experiments, surveys, observations, or interviews. They rely on objective data and facts to support their claims and conclusions.
• Structured and organized: Research papers have a clear and logical structure, with sections such as introduction, literature review, methods, results, discussion, and conclusion. They are organized in a way that helps the reader to follow the argument and understand the findings.
• Formal and objective: Research papers are written in a formal and objective tone, with an emphasis on clarity, precision, and accuracy. They avoid subjective language or personal opinions and instead rely on objective data and analysis to support their arguments.
• Citations and references: Research papers include citations and references to acknowledge the sources of information and ideas used in the paper. They use a specific citation style, such as APA, MLA, or Chicago, to ensure consistency and accuracy.
• Peer-reviewed: Research papers are often peer-reviewed, which means they are evaluated by other experts in the field before they are published. Peer-review ensures that the research is of high quality, meets ethical standards, and contributes to the advancement of knowledge in the field.
• Objective and unbiased: Research papers strive to be objective and unbiased in their presentation of the findings. They avoid personal biases or preconceptions and instead rely on the data and analysis to draw conclusions.

Advantages of Research Paper

Research papers have many advantages, both for the individual researcher and for the broader academic and professional community. Here are some advantages of research papers:

• Contribution to knowledge: Research papers contribute to the body of knowledge in a particular field or discipline. They add new information, insights, and perspectives to existing literature and help advance the understanding of a particular phenomenon or issue.
• Opportunity for intellectual growth: Research papers provide an opportunity for intellectual growth for the researcher. They require critical thinking, problem-solving, and creativity, which can help develop the researcher’s skills and knowledge.
• Career advancement: Research papers can help advance the researcher’s career by demonstrating their expertise and contributions to the field. They can also lead to new research opportunities, collaborations, and funding.
• Academic recognition: Research papers can lead to academic recognition in the form of awards, grants, or invitations to speak at conferences or events. They can also contribute to the researcher’s reputation and standing in the field.
• Impact on policy and practice: Research papers can have a significant impact on policy and practice. They can inform policy decisions, guide practice, and lead to changes in laws, regulations, or procedures.
• Advancement of society: Research papers can contribute to the advancement of society by addressing important issues, identifying solutions to problems, and promoting social justice and equality.

Limitations of Research Paper

Research papers also have some limitations that should be considered when interpreting their findings or implications. Here are some common limitations of research papers:

• Limited generalizability: Research findings may not be generalizable to other populations, settings, or contexts. Studies often use specific samples or conditions that may not reflect the broader population or real-world situations.
• Potential for bias : Research papers may be biased due to factors such as sample selection, measurement errors, or researcher biases. It is important to evaluate the quality of the research design and methods used to ensure that the findings are valid and reliable.
• Ethical concerns: Research papers may raise ethical concerns, such as the use of vulnerable populations or invasive procedures. Researchers must adhere to ethical guidelines and obtain informed consent from participants to ensure that the research is conducted in a responsible and respectful manner.
• Limitations of methodology: Research papers may be limited by the methodology used to collect and analyze data. For example, certain research methods may not capture the complexity or nuance of a particular phenomenon, or may not be appropriate for certain research questions.
• Publication bias: Research papers may be subject to publication bias, where positive or significant findings are more likely to be published than negative or non-significant findings. This can skew the overall findings of a particular area of research.
• Time and resource constraints: Research papers may be limited by time and resource constraints, which can affect the quality and scope of the research. Researchers may not have access to certain data or resources, or may be unable to conduct long-term studies due to practical limitations.

About the author

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Structure of a Research Paper

Structure of a Research Paper: IMRaD Format

I. The Title Page

• Title: Tells the reader what to expect in the paper.
• Author(s): Most papers are written by one or two primary authors. The remaining authors have reviewed the work and/or aided in study design or data analysis (International Committee of Medical Editors, 1997). Check the Instructions to Authors for the target journal for specifics about authorship.
• Keywords [according to the journal]
• Corresponding Author: Full name and affiliation for the primary contact author for persons who have questions about the research.
• Financial & Equipment Support [if needed]: Specific information about organizations, agencies, or companies that supported the research.
• Conflicts of Interest [if needed]: List and explain any conflicts of interest.

II. Abstract: “Structured abstract” has become the standard for research papers (introduction, objective, methods, results and conclusions), while reviews, case reports and other articles have non-structured abstracts. The abstract should be a summary/synopsis of the paper.

III. Introduction: The “why did you do the study”; setting the scene or laying the foundation or background for the paper.

IV. Methods: The “how did you do the study.” Describe the --

• Context and setting of the study
• Specify the study design
• Population (patients, etc. if applicable)
• Sampling strategy
• Intervention (if applicable)
• Identify the main study variables
• Data collection instruments and procedures
• Outline analysis methods

V. Results: The “what did you find” --

• Report on data collection and/or recruitment
• Participants (demographic, clinical condition, etc.)
• Present key findings with respect to the central research question
• Secondary findings (secondary outcomes, subgroup analyses, etc.)

VI. Discussion: Place for interpreting the results

• Main findings of the study
• Discuss the main results with reference to previous research
• Policy and practice implications of the results
• Strengths and limitations of the study

VII. Conclusions: [occasionally optional or not required]. Do not reiterate the data or discussion. Can state hunches, inferences or speculations. Offer perspectives for future work.

VIII. Acknowledgements: Names people who contributed to the work, but did not contribute sufficiently to earn authorship. You must have permission from any individuals mentioned in the acknowledgements sections. 

IX. References:  Complete citations for any articles or other materials referenced in the text of the article.

• IMRD Cheatsheet (Carnegie Mellon) pdf.
• Adewasi, D. (2021 June 14).  What Is IMRaD? IMRaD Format in Simple Terms! . Scientific-editing.info. 
• Nair, P.K.R., Nair, V.D. (2014). Organization of a Research Paper: The IMRAD Format. In: Scientific Writing and Communication in Agriculture and Natural Resources. Springer, Cham. https://doi.org/10.1007/978-3-319-03101-9_2
• Sollaci, L. B., & Pereira, M. G. (2004). The introduction, methods, results, and discussion (IMRAD) structure: a fifty-year survey.   Journal of the Medical Library Association : JMLA ,  92 (3), 364–367.
• Cuschieri, S., Grech, V., & Savona-Ventura, C. (2019). WASP (Write a Scientific Paper): Structuring a scientific paper.   Early human development ,  128 , 114–117. https://doi.org/10.1016/j.earlhumdev.2018.09.011

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Parts of a Research Paper

One of the most important aspects of science is ensuring that you get all the parts of the written research paper in the right order.

This article is a part of the guide:

• Outline Examples
• Example of a Paper
• Write a Hypothesis
• Introduction

Browse Full Outline

• 1 Write a Research Paper
• 2 Writing a Paper
• 3.1 Write an Outline
• 3.2 Outline Examples
• 4.1 Thesis Statement
• 4.2 Write a Hypothesis
• 5.2 Abstract
• 5.3 Introduction
• 5.4 Methods
• 5.5 Results
• 5.6 Discussion
• 5.7 Conclusion
• 5.8 Bibliography
• 6.1 Table of Contents
• 6.2 Acknowledgements
• 6.3 Appendix
• 7.1 In Text Citations
• 7.2 Footnotes
• 7.3.1 Floating Blocks
• 7.4 Example of a Paper
• 7.5 Example of a Paper 2
• 7.6.1 Citations
• 7.7.1 Writing Style
• 7.7.2 Citations
• 8.1.1 Sham Peer Review
• 8.1.2 Advantages
• 8.1.3 Disadvantages
• 8.2 Publication Bias
• 8.3.1 Journal Rejection
• 9.1 Article Writing
• 9.2 Ideas for Topics

You may have finished the best research project on earth but, if you do not write an interesting and well laid out paper, then nobody is going to take your findings seriously.

The main thing to remember with any research paper is that it is based on an hourglass structure. It begins with general information and undertaking a literature review , and becomes more specific as you nail down a research problem and hypothesis .

Finally, it again becomes more general as you try to apply your findings to the world at general.

Whilst there are a few differences between the various disciplines, with some fields placing more emphasis on certain parts than others, there is a basic underlying structure.

These steps are the building blocks of constructing a good research paper. This section outline how to lay out the parts of a research paper, including the various experimental methods and designs.

The principles for literature review and essays of all types follow the same basic principles.

Reference List

For many students, writing the introduction is the first part of the process, setting down the direction of the paper and laying out exactly what the research paper is trying to achieve.

For others, the introduction is the last thing written, acting as a quick summary of the paper. As long as you have planned a good structure for the parts of a research paper, both approaches are acceptable and it is a matter of preference.

A good introduction generally consists of three distinct parts:

• You should first give a general presentation of the research problem.
• You should then lay out exactly what you are trying to achieve with this particular research project.
• You should then state your own position.

Ideally, you should try to give each section its own paragraph, but this will vary given the overall length of the paper.

1) General Presentation

Look at the benefits to be gained by the research or why the problem has not been solved yet. Perhaps nobody has thought about it, or maybe previous research threw up some interesting leads that the previous researchers did not follow up.

Another researcher may have uncovered some interesting trends, but did not manage to reach the significance level , due to experimental error or small sample sizes .

2) Purpose of the Paper

The research problem does not have to be a statement, but must at least imply what you are trying to find.

Many writers prefer to place the thesis statement or hypothesis here, which is perfectly acceptable, but most include it in the last sentences of the introduction, to give the reader a fuller picture.

3) A Statement of Intent From the Writer

The idea is that somebody will be able to gain an overall view of the paper without needing to read the whole thing. Literature reviews are time-consuming enough, so give the reader a concise idea of your intention before they commit to wading through pages of background.

In this section, you look to give a context to the research, including any relevant information learned during your literature review. You are also trying to explain why you chose this area of research, attempting to highlight why it is necessary. The second part should state the purpose of the experiment and should include the research problem. The third part should give the reader a quick summary of the form that the parts of the research paper is going to take and should include a condensed version of the discussion.

This should be the easiest part of the paper to write, as it is a run-down of the exact design and methodology used to perform the research. Obviously, the exact methodology varies depending upon the exact field and type of experiment .

There is a big methodological difference between the apparatus based research of the physical sciences and the methods and observation methods of social sciences. However, the key is to ensure that another researcher would be able to replicate the experiment to match yours as closely as possible, but still keeping the section concise.

You can assume that anybody reading your paper is familiar with the basic methods, so try not to explain every last detail. For example, an organic chemist or biochemist will be familiar with chromatography, so you only need to highlight the type of equipment used rather than explaining the whole process in detail.

In the case of a survey , if you have too many questions to cover in the method, you can always include a copy of the questionnaire in the appendix . In this case, make sure that you refer to it.

This is probably the most variable part of any research paper, and depends on the results and aims of the experiment.

For quantitative research , it is a presentation of the numerical results and data, whereas for qualitative research it should be a broader discussion of trends, without going into too much detail.

For research generating a lot of results , then it is better to include tables or graphs of the analyzed data and leave the raw data in the appendix, so that a researcher can follow up and check your calculations.

A commentary is essential to linking the results together, rather than just displaying isolated and unconnected charts and figures.

It can be quite difficult to find a good balance between the results and the discussion section, because some findings, especially in a quantitative or descriptive experiment , will fall into a grey area. Try to avoid repeating yourself too often.

It is best to try to find a middle path, where you give a general overview of the data and then expand on it in the discussion - you should try to keep your own opinions and interpretations out of the results section, saving that for the discussion later on.

This is where you elaborate on your findings, and explain what you found, adding your own personal interpretations.

Ideally, you should link the discussion back to the introduction, addressing each point individually.

It’s important to make sure that every piece of information in your discussion is directly related to the thesis statement , or you risk cluttering your findings. In keeping with the hourglass principle, you can expand on the topic later in the conclusion .

The conclusion is where you build on your discussion and try to relate your findings to other research and to the world at large.

In a short research paper, it may be a paragraph or two, or even a few lines.

In a dissertation, it may well be the most important part of the entire paper - not only does it describe the results and discussion in detail, it emphasizes the importance of the results in the field, and ties it in with the previous research.

Some research papers require a recommendations section, postulating the further directions of the research, as well as highlighting how any flaws affected the results. In this case, you should suggest any improvements that could be made to the research design .

No paper is complete without a reference list , documenting all the sources that you used for your research. This should be laid out according to APA , MLA or other specified format, allowing any interested researcher to follow up on the research.

One habit that is becoming more common, especially with online papers, is to include a reference to your own paper on the final page. Lay this out in MLA, APA and Chicago format, allowing anybody referencing your paper to copy and paste it.

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Research Paper Structure: A Comprehensive Guide

Table of Contents

Writing a research paper is a daunting task, but understanding its structure can make the process more manageable and lead to a well-organized, coherent paper. This article provides a step-by-step approach to crafting a research paper, ensuring your work is not only informative but also structured for maximum impact.

Introduction

In any form of written communication, content structure plays a vital role in facilitating understanding. A well-structured research paper provides a framework that guides readers through the content, ensuring they grasp the main points efficiently. Without a clear structure, readers may become lost or confused, leading to a loss of interest and a failure to comprehend the intended message.

When it comes to research papers, structure is particularly important due to the complexity of the subject matter. Research papers often involve presenting and analyzing large amounts of data, theories, and arguments. Without a well-defined structure, readers may struggle to navigate through this information overload, resulting in a fragmented understanding of the topic.

How Structure Enhances Clarity and Coherence

A well-structured research paper not only helps readers follow the flow of ideas but also enhances the clarity and coherence of the content. By organizing information into sections, paragraphs, and sentences, researchers can present their thoughts logically and systematically. This logical organization allows readers to easily connect ideas, resulting in a more coherent and engaging reading experience.

One way in which structure enhances clarity is by providing a clear roadmap for readers to follow. By dividing the research paper into sections and subsections, researchers can guide readers through the different aspects of the topic. This allows readers to anticipate the flow of information and mentally prepare themselves for the upcoming content.

In addition, a well-structured research paper ensures that each paragraph serves a specific purpose and contributes to the overall argument or analysis. By clearly defining the main idea of each paragraph and providing supporting evidence or examples, researchers can avoid confusion and ensure that their points are effectively communicated.

Moreover, a structured research paper helps researchers maintain a consistent focus throughout their writing. By organizing their thoughts and ideas, researchers can ensure that they stay on track and avoid going off on tangents. This not only improves the clarity of the paper but also helps maintain the reader's interest and engagement.

Components of a Research Paper Structure

Title and abstract: the initial impression.

The title and abstract are the first elements readers encounter when accessing a research paper. The title should be concise, informative, and capture the essence of the study. For example, a title like "Exploring the Impact of Climate Change on Biodiversity in Tropical Rainforests" immediately conveys the subject matter and scope of the research. The abstract, on the other hand, provides a brief overview of the research problem, methodology, and findings, enticing readers to delve further into the paper. In a well-crafted abstract, researchers may highlight key results or implications of the study, giving readers a glimpse into the value of the research.

Introduction: Setting the Stage

The introduction serves as an invitation for readers to engage with the research paper. It should provide background information on the topic, highlight the research problem, and present the research question or thesis statement. By establishing the context and relevance of the study, the introduction piques readers' interest and prepares them for the content to follow. For instance, in a study on the impact of social media on mental health, the introduction may discuss the rise of social media platforms and the growing concerns about its effects on individuals' well-being. This contextual information helps readers understand the significance of the research and why it is worth exploring further.

Furthermore, the introduction may also outline the objectives of the study, stating what the researchers aim to achieve through their research. This helps readers understand the purpose and scope of the study, setting clear expectations for what they can expect to learn from the paper.

Literature Review: Building the Foundation

The literature review is a critical component of a research paper, as it demonstrates the researcher's understanding of existing knowledge and provides a foundation for the study. It involves reviewing and analyzing relevant scholarly articles, books, and other sources to identify gaps in research and establish the need for the current study. In a comprehensive literature review, researchers may summarize key findings from previous studies, identify areas of disagreement or controversy, and highlight the limitations of existing research.

Moreover, the literature review may also discuss theoretical frameworks or conceptual models that have been used in previous studies. By examining these frameworks, researchers can identify the theoretical underpinnings of their study and explain how their research fits within the broader academic discourse. This not only adds depth to the research paper but also helps readers understand the theoretical context in which the study is situated.

Methodology: Detailing the Process

The research design, data collection methods, and analysis techniques used in the study are described in the methodology section. It should be presented clearly and concisely, allowing readers to understand how the research was conducted and evaluated. A well-described methodology ensures the study's reliability and allows other researchers to replicate or build upon the findings.

Within the methodology section, researchers may provide a detailed description of the study population or sample, explaining how participants were selected and why they were chosen. This helps readers understand the generalizability of the findings and the extent to which they can be applied to a broader population.

In addition, researchers may also discuss any ethical considerations that were taken into account during the study. This could include obtaining informed consent from participants, ensuring confidentiality and anonymity, and following ethical guidelines set by relevant professional organizations. By addressing these ethical concerns, researchers demonstrate their commitment to conducting research in an ethical and responsible manner.

Results: Presenting the Findings

The results section represents the study findings. Researchers should organize their results in a logical manner, using tables, graphs, and descriptive statistics to support their conclusions. The results should be presented objectively, without interpretation or analysis. For instance, for a study on the effectiveness of a new drug in treating a specific medical condition, researchers may present the percentage of patients who experienced positive outcomes, along with any statistical significance associated with the results.

In addition to presenting the main findings, researchers may also include supplementary data or sub-analyses that provide further insights into the research question. This could include subgroup analyses, sensitivity analyses, or additional statistical tests that help explore the robustness of the findings.

Discussion: Interpreting the Results

In the discussion section, researchers analyze and interpret the results in light of the research question or thesis statement. This is an opportunity to explore the implications of the findings, compare them with existing literature, and offer insights into the broader significance of the study. The discussion should be supported by evidence and it is advised to avoid speculation.

Researchers may also discuss the limitations of their study, acknowledging any potential biases or confounding factors that may have influenced the results. By openly addressing these limitations, researchers demonstrate their commitment to transparency and scientific rigor.

Conclusion: Wrapping It Up

The conclusion provides a concise summary of the research paper, restating the main findings and their implications. It should also reflect on the significance of the study and suggest potential avenues for future research. A well-written conclusion leaves a lasting impression on readers, highlighting the importance of the research and its potential impact. By summarizing the key takeaways from the study, researchers ensure that readers walk away with a clear understanding of the research's contribution to the field.

Tips for Organizing Your Research Paper

Starting with a strong thesis statement.

A strong and clear thesis statement serves as the backbone of your research paper. It provides focus and direction, guiding the organization of ideas and arguments throughout the paper. Take the time to craft a well-defined thesis statement that encapsulates the core message of your research.

Creating an Outline: The Blueprint of Your Paper

An outline acts as a blueprint for your research paper, ensuring a logical flow of ideas and preventing disorganization. Divide your paper into sections and subsections, noting the main points and supporting arguments for each. This will help you maintain coherence and clarity throughout the writing process.

Balancing Depth and Breadth in Your Paper

When organizing your research paper, strike a balance between delving deeply into specific points and providing a broader overview. While depth is important for thorough analysis, too much detail can overwhelm readers. Consider your target audience and their level of familiarity with the topic to determine the appropriate level of depth and breadth for your paper.

By understanding the importance of research paper structure and implementing effective organizational strategies, researchers can ensure their work is accessible, engaging, and influential. A well-structured research paper not only communicates ideas clearly but also enhances the overall impact of the study. With careful planning and attention to detail, researchers can master the art of structuring their research papers, making them a valuable contribution to their field of study.

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Table of contents

Brinda Gulati

Welcome to the twilight zone of research writing. You’ve got your thesis statement and research evidence, and before you write the first draft, you need a wireframe — a structure on which your research paper can stand tall. 

When you’re looking to share your research with the wider scientific community, your discoveries and breakthroughs are important, yes. But what’s more important is that you’re able to communicate your research in an accessible format. For this, you need to publish your paper in journals. And to have your research published in a journal, you need to know how to structure a research paper.

Here, you’ll find a template of a research paper structure, a section-by-section breakdown of the eight structural elements, and actionable insights from three published researchers.

Let’s begin!

Why is the Structure of a Research Paper Important?

A research paper built on a solid structure is the literary equivalent of calcium supplements for weak bones.

Richard Smith of BMJ says, “...no amount of clever language can compensate for a weak structure."

There’s space for your voice and creativity in your research, but without a structure, your paper is as good as a beached whale — stranded and bloated.

A well-structured research paper:

• Communicates your credibility as a student scholar in the wider academic community.
• Facilitates accessibility for readers who may not be in your field but are interested in your research.
• Promotes clear communication between disciplines, thereby eliminating “concept transfer” as a rate-limiting step in scientific cross-pollination.
• Increases your chances of getting published!

Research Paper Structure Template

Why Was My Research Paper Rejected?

A desk rejection hurts — sometimes more than stubbing your pinky toe against a table.

Oftentimes, journals will reject your research paper before sending it off for peer review if the architecture of your manuscript is shoddy. 

The JAMA Internal Medicine , for example, rejected 78% of the manuscripts it received in 2017 without review. Among the top 10 reasons? Poor presentation and poor English . (We’ve got fixes for both here, don’t you worry.)

5 Common Mistakes in a Research Paper Structure

• Choppy transitions : Missing or abrupt transitions between sections disrupt the flow of your paper. Read our guide on transition words here. 
• Long headings : Long headings can take away from your main points. Be concise and informative, using parallel structure throughout.
• Disjointed thoughts : Make sure your paragraphs flow logically from one another and support your central point.
• Misformatting : An inconsistent or incorrect layout can make your paper look unprofessional and hard to read. For font, spacing, margins, and section headings, strictly follow your target journal's guidelines.
• Disordered floating elements : Ill-placed and unlabeled tables, figures, and appendices can disrupt your paper's structure. Label, caption, and reference all floating elements in the main text.

What Is the Structure of a Research Paper? 

The structure of a research paper closely resembles the shape of a diamond flowing from the general ➞ specific ➞ general. 

We’ll follow the IMRaD ( I ntroduction , M ethods , R esults , and D iscussion) format within the overarching “context-content-conclusion” approach:

➞ The context sets the stage for the paper where you tell your readers, “This is what we already know, and here’s why my research matters.”

➞ The content is the meat of the paper where you present your methods, results, and discussion. This is the IMRad (Introduction, Methods, Results, and Discussion) format — the most popular way to organize the body of a research paper. 

➞ The conclusion is where you bring it home — “Here’s what we’ve learned, and here’s where it plays out in the grand scheme of things.”

Now, let’s see what this means section by section.

1. Research Paper Title

A research paper title is read first, and read the most. 

The title serves two purposes: informing readers and attracting attention . Therefore, your research paper title should be clear, descriptive, and concise . If you can, avoid technical jargon and abbreviations. Your goal is to get as many readers as possible.

In fact, research articles with shorter titles describing the results are cited more often . 

An impactful title is usually 10 words long, plus or minus three words. 

For example:

• "Mortality in Puerto Rico after Hurricane Maria" (word count = 7)
• “A Review of Practical Techniques For the Diagnosis of Malaria” (word count = 10)

2. Research Paper Abstract

In an abstract, you have to answer the two whats :

• What has been done?
• What are the main findings?

The abstract is the elevator pitch for your research. Is your paper worth reading? Convince the reader here. 

✏️ NOTE : According to different journals’ guidelines, sometimes the title page and abstract section are on the same page. 

An abstract ranges from 200-300 words and doubles down on the relevance and significance of your research. Succinctly.  

This is your chance to make a second first impression. 

If you’re stuck with a blob of text and can’t seem to cut it down, a smart AI elf like Wordtune can help you write a concise abstract! The AI research assistant also offers suggestions for improved clarity and grammar so your elevator pitch doesn’t fall by the wayside. 

Get Wordtune for free > Get Wordtune for free >

3. Introduction Section

What does it do.

Asks the central research question.

Pre-Writing Questions For the Introduction Section

The introduction section of your research paper explains the scope, context, and importance of your project. 

I talked to Swagatama Mukherjee , a published researcher and graduate student in Neuro-Oncology studying Glioblastoma Progression. For the Introduction, she says, focus on answering three key questions:

• What isn’t known in the field? 
• How is that knowledge gap holding us back?
• How does your research focus on answering this problem?

When Should You Write It?

Write it last. As you go along filling in the body of your research paper, you may find that the writing is evolving in a different direction than when you first started. 

Organizing the Introduction

Visualize the introduction as an upside-down triangle when considering the overall outline of this section. You'll need to give a broad introduction to the topic, provide background information, and then narrow it down to specific research. Finally, you'll need a focused research question, hypothesis, or thesis statement. The move is from general ➞ specific.

✨️ BONUS TIP: Use the famous CARS model by John Swales to nail this upside-down triangle. 

4. methods section.

Describes what was done to answer the research question, and how.

Write it first . Just list everything you’ve done, and go from there. How did you assign participants into groups? What kind of questionnaires have you used? How did you analyze your data? 

Write as if the reader were following an instruction manual on how to duplicate your research methodology to the letter. 

Organizing the Methods Section

Here, you’re telling the story of your research. 

Write in as much detail as possible, and in the chronological order of the experiments. Follow the order of the results, so your readers can track the gradual development of your research. Use headings and subheadings to visually format the section.

This skeleton isn’t set in stone. The exact headings will be determined by your field of study and the journal you’re submitting to. 

✨️ BONUS TIP : Drowning in research? Ask Wordtune to summarize your PDFs for you!

5. results section .

Reports the findings of your study in connection to your research question.

Write the section only after you've written a draft of your Methods section, and before the Discussion.

This section is the star of your research paper. But don't get carried away just yet. Focus on factual, unbiased information only. Tell the reader how you're going to change the world in the next section. The Results section is strictly a no-opinions zone.

How To Organize Your Results 

A tried-and-true structure for presenting your findings is to outline your results based on the research questions outlined in the figures.

Whenever you address a research question, include the data that directly relates to that question.

What does this mean? Let’s look at an example:

Here's a sample research question:

How does the use of social media affect the academic performance of college students?

Make a statement based on the data:

College students who spent more than 3 hours per day on social media had significantly lower GPAs compared to those who spent less than 1 hour per day (M=2.8 vs. M=3.4; see Fig. 2).

You can elaborate on this finding with secondary information:

The negative impact of social media use on academic performance was more pronounced among freshmen and sophomores compared to juniors and seniors ((F>25), (S>20), (J>15), and (Sr>10); see Fig. 4).

Finally, caption your figures in the same way — use the data and your research question to construct contextual phrases. The phrases should give your readers a framework for understanding the data: 

Figure 4. Percentage of college students reporting a negative impact of social media on academic performance, by year in school.

Dos and Don’ts For The Results Section

✔️ Related : How to Write a Research Paper (+ Free AI Research Paper Writer)

6. discussion section.

Explains the importance and implications of your findings, both in your specific area of research, as well as in a broader context. 

Pre-Writing Questions For the Discussion Section

• What is the relationship between these results and the original question in the Introduction section?
• How do your results compare with those of previous research? Are they supportive, extending, or contradictory to existing knowledge?
• What is the potential impact of your findings on theory, practice, or policy in your field?
• Are there any strengths or weaknesses in your study design, methods, or analysis? Can these factors affect how you interpret your results?
• Based on your findings, what are the next steps or directions for research? Have you got any new questions or hypotheses?

Before the Introduction section, and after the Results section. 

Based on the pre-writing questions, five main elements can help you structure your Discussion section paragraph by paragraph:

• Summary : Restate your research question/problem and summarize your major findings.
• Interpretations : Identify patterns, contextualize your findings, explain unexpected results, and discuss if and how your results satisfied your hypotheses.
• Implications: Explore if your findings challenge or support existing research, share new insights, and discuss the consequences in theory or practice.
• Limitations : Acknowledge what your results couldn’t achieve because of research design or methodological choices.
• Recommendations : Give concrete ideas about how further research can be conducted to explore new avenues in your field of study. 

Dos and Don’ts For the Discussion Section

Aritra Chatterjee , a licensed clinical psychologist and published mental health researcher, advises, “If your findings are not what you expected, disclose this honestly. That’s what good research is about.”

7. Acknowledgments

Expresses gratitude to mentors, colleagues, and funding sources who’ve helped your research.

Write this section after all the parts of IMRaD are done to reflect on your research journey without getting distracted midway. 

After a lot of scientific writing, you might get stumped trying to write a few lines to say thanks. Don’t let this be the reason for a late or no-submission.

Wordtune can make a rough draft for you. 

All you then have to do is edit the AI-generated content to suit your voice, and replace any text placeholders as needed:

8. References

Lists all the works/sources used in your research with proper citations. 

The two most important aspects of referencing are: 

• Following the correct format; and 
• Properly citing the sources. 

Keep a working document of the works you’ve referenced as you go along, but leave the finishing touches for last after you’ve completed the body of your research paper — the IMRaD.

Tips For Writing the References Section

The error rate of references in several scientific disciplines is 25%-54% . 

Don’t want to be a part of this statistic? We got you.

• Choose quality over quantity : While it's tempting to pad your bibliography to seem more scholarly, this is a rookie mistake.   Samantha Summers , a museum professional based in Canada, is a published researcher in Medieval History and Critical Philanthropy studies. According to her, “Adding in a citation just to lengthen your bibliography and without engaging deeply with the cited work doesn’t make for good writing.” We ought to listen to her advice — she has three Master’s degrees to her name for a reason. 
• Select the correct referencing guide : Always cross-check with your chosen journal’s or institution’s preference for either Harvard, MLA, APA, Chicago, or IEEE. 
• Include recent studies and research : Aim to cite academically ripe sources — not overripe. Research from the past half-decade or so is ideal, whereas studies from the 80s or 90s run a higher risk of being stale. 
• Use a reliable reference manager software : Swagatama recommends several free resources that have helped her get her research organized and published — Zotero and Mendeley are top contenders, followed by EndNote . 

By the end, your References section will look something like this:

Ready, Get, Set, Publish!

Dust yourself off, we've made it out of the twilight zone. You’ve now got the diamond of the structure of a research paper — the IMRaD format within the “context-content-conclusion” model. 

Keep this structure handy as you fill in the bones of your research paper. And if you’re stuck staring at a blinking cursor, fresh out of brain juice? 

An AI-powered writing assistant like Wordtune can help you polish your diamond, craft great abstracts, and speed through drafts! 

You've got this.

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Writing Research Papers

• Research Paper Structure

Whether you are writing a B.S. Degree Research Paper or completing a research report for a Psychology course, it is highly likely that you will need to organize your research paper in accordance with American Psychological Association (APA) guidelines.  Here we discuss the structure of research papers according to APA style.

Major Sections of a Research Paper in APA Style

A complete research paper in APA style that is reporting on experimental research will typically contain a Title page, Abstract, Introduction, Methods, Results, Discussion, and References sections. 1  Many will also contain Figures and Tables and some will have an Appendix or Appendices.  These sections are detailed as follows (for a more in-depth guide, please refer to " How to Write a Research Paper in APA Style ”, a comprehensive guide developed by Prof. Emma Geller). 2

What is this paper called and who wrote it? – the first page of the paper; this includes the name of the paper, a “running head”, authors, and institutional affiliation of the authors.  The institutional affiliation is usually listed in an Author Note that is placed towards the bottom of the title page.  In some cases, the Author Note also contains an acknowledgment of any funding support and of any individuals that assisted with the research project.

One-paragraph summary of the entire study – typically no more than 250 words in length (and in many cases it is well shorter than that), the Abstract provides an overview of the study.

Introduction

What is the topic and why is it worth studying? – the first major section of text in the paper, the Introduction commonly describes the topic under investigation, summarizes or discusses relevant prior research (for related details, please see the Writing Literature Reviews section of this website), identifies unresolved issues that the current research will address, and provides an overview of the research that is to be described in greater detail in the sections to follow.

What did you do? – a section which details how the research was performed.  It typically features a description of the participants/subjects that were involved, the study design, the materials that were used, and the study procedure.  If there were multiple experiments, then each experiment may require a separate Methods section.  A rule of thumb is that the Methods section should be sufficiently detailed for another researcher to duplicate your research.

What did you find? – a section which describes the data that was collected and the results of any statistical tests that were performed.  It may also be prefaced by a description of the analysis procedure that was used. If there were multiple experiments, then each experiment may require a separate Results section.

What is the significance of your results? – the final major section of text in the paper.  The Discussion commonly features a summary of the results that were obtained in the study, describes how those results address the topic under investigation and/or the issues that the research was designed to address, and may expand upon the implications of those findings.  Limitations and directions for future research are also commonly addressed.

List of articles and any books cited – an alphabetized list of the sources that are cited in the paper (by last name of the first author of each source).  Each reference should follow specific APA guidelines regarding author names, dates, article titles, journal titles, journal volume numbers, page numbers, book publishers, publisher locations, websites, and so on (for more information, please see the Citing References in APA Style page of this website).

Tables and Figures

Graphs and data (optional in some cases) – depending on the type of research being performed, there may be Tables and/or Figures (however, in some cases, there may be neither).  In APA style, each Table and each Figure is placed on a separate page and all Tables and Figures are included after the References.   Tables are included first, followed by Figures.   However, for some journals and undergraduate research papers (such as the B.S. Research Paper or Honors Thesis), Tables and Figures may be embedded in the text (depending on the instructor’s or editor’s policies; for more details, see "Deviations from APA Style" below).

Supplementary information (optional) – in some cases, additional information that is not critical to understanding the research paper, such as a list of experiment stimuli, details of a secondary analysis, or programming code, is provided.  This is often placed in an Appendix.

Variations of Research Papers in APA Style

Although the major sections described above are common to most research papers written in APA style, there are variations on that pattern.  These variations include: 

• Literature reviews – when a paper is reviewing prior published research and not presenting new empirical research itself (such as in a review article, and particularly a qualitative review), then the authors may forgo any Methods and Results sections. Instead, there is a different structure such as an Introduction section followed by sections for each of the different aspects of the body of research being reviewed, and then perhaps a Discussion section. 
• Multi-experiment papers – when there are multiple experiments, it is common to follow the Introduction with an Experiment 1 section, itself containing Methods, Results, and Discussion subsections. Then there is an Experiment 2 section with a similar structure, an Experiment 3 section with a similar structure, and so on until all experiments are covered.  Towards the end of the paper there is a General Discussion section followed by References.  Additionally, in multi-experiment papers, it is common for the Results and Discussion subsections for individual experiments to be combined into single “Results and Discussion” sections.

Departures from APA Style

In some cases, official APA style might not be followed (however, be sure to check with your editor, instructor, or other sources before deviating from standards of the Publication Manual of the American Psychological Association).  Such deviations may include:

• Placement of Tables and Figures  – in some cases, to make reading through the paper easier, Tables and/or Figures are embedded in the text (for example, having a bar graph placed in the relevant Results section). The embedding of Tables and/or Figures in the text is one of the most common deviations from APA style (and is commonly allowed in B.S. Degree Research Papers and Honors Theses; however you should check with your instructor, supervisor, or editor first). 
• Incomplete research – sometimes a B.S. Degree Research Paper in this department is written about research that is currently being planned or is in progress. In those circumstances, sometimes only an Introduction and Methods section, followed by References, is included (that is, in cases where the research itself has not formally begun).  In other cases, preliminary results are presented and noted as such in the Results section (such as in cases where the study is underway but not complete), and the Discussion section includes caveats about the in-progress nature of the research.  Again, you should check with your instructor, supervisor, or editor first.
• Class assignments – in some classes in this department, an assignment must be written in APA style but is not exactly a traditional research paper (for instance, a student asked to write about an article that they read, and to write that report in APA style). In that case, the structure of the paper might approximate the typical sections of a research paper in APA style, but not entirely.  You should check with your instructor for further guidelines.

Workshops and Downloadable Resources

• For in-person discussion of the process of writing research papers, please consider attending this department’s “Writing Research Papers” workshop (for dates and times, please check the undergraduate workshops calendar).

Downloadable Resources

• How to Write APA Style Research Papers (a comprehensive guide) [ PDF ]
• Tips for Writing APA Style Research Papers (a brief summary) [ PDF ]
• Example APA Style Research Paper (for B.S. Degree – empirical research) [ PDF ]
• Example APA Style Research Paper (for B.S. Degree – literature review) [ PDF ]

Further Resources

How-To Videos     

• Writing Research Paper Videos

APA Journal Article Reporting Guidelines

• Appelbaum, M., Cooper, H., Kline, R. B., Mayo-Wilson, E., Nezu, A. M., & Rao, S. M. (2018). Journal article reporting standards for quantitative research in psychology: The APA Publications and Communications Board task force report . American Psychologist , 73 (1), 3.
• Levitt, H. M., Bamberg, M., Creswell, J. W., Frost, D. M., Josselson, R., & Suárez-Orozco, C. (2018). Journal article reporting standards for qualitative primary, qualitative meta-analytic, and mixed methods research in psychology: The APA Publications and Communications Board task force report . American Psychologist , 73 (1), 26.  

External Resources

• Formatting APA Style Papers in Microsoft Word
• How to Write an APA Style Research Paper from Hamilton University
• WikiHow Guide to Writing APA Research Papers
• Sample APA Formatted Paper with Comments
• Sample APA Formatted Paper
• Tips for Writing a Paper in APA Style

1 VandenBos, G. R. (Ed). (2010). Publication manual of the American Psychological Association (6th ed.) (pp. 41-60).  Washington, DC: American Psychological Association.

2 geller, e. (2018).  how to write an apa-style research report . [instructional materials]. , prepared by s. c. pan for ucsd psychology.

Back to top  

• Formatting Research Papers
• Using Databases and Finding References
• What Types of References Are Appropriate?
• Evaluating References and Taking Notes
• Citing References
• Writing a Literature Review
• Writing Process and Revising
• Improving Scientific Writing
• Academic Integrity and Avoiding Plagiarism
• Writing Research Papers Videos

Structure of a Research Paper: Tips to Improve Your Manuscript

You’ve spent months or years conducting your academic research. Now it’s time to write your journal article. For some, this can become a daunting task because writing is not their forte. It might become difficult to even start writing. However, once you organize your thoughts and begin writing them down, the overall task will become easier.

We provide some helpful tips for you here.

Organize Your Thoughts

Perhaps one of the most important tasks before you even begin to write is to get organized. By this point, your data is compiled and analyzed. You most likely also have many pages of “notes”. These must also be organized. Fortunately, this is much easier to do than in the past with hand-written notes. Presuming that these tasks are completed, what’s next?

Related: Ready with your title and looking forward to manuscript submission ? Check these journal selection guidelines  now!

When suggesting that you organize your thoughts, we mean to take a look at what you have compiled. Ask yourself what you are trying to convey to the reader. What is the most important message from your research? How will your results affect others? Is more research necessary?

Write your answers down and keep them where you can see them while writing. This will help you focus on your goals.

Aim for Clarity

Your paper should be presented as clearly as possible. You want your readers to understand your research. You also do not want them to stop reading because the text is too technical.

Keep in mind that your published research will be available in academic journals all over the world. This means that people of different languages will read it. Moreover, even with scientists, this could present a language barrier. According to a recent article , always remember the following points as you write:

• Clarity : Cleary define terms; avoid nonrelevant information.
• Simplicity : Keep sentence structure simple and direct.
• Accuracy : Represent all data and illustrations accurately.

For example, consider the following sentence:

“Chemical x had an effect on metabolism.”

This is an ambiguous statement. It does not tell the reader much. State the results instead:

“Chemical x increased fat metabolism by 20 percent.”

All scientific research also provide significance of findings, usually presented as defined “P” values. Be sure to explain these findings using descriptive terms. For example, rather than using the words “ significant effect ,” use a more descriptive term, such as “ significant increase .”

For more tips, please also see “Tips and Techniques for Scientific Writing”. In addition, it is very important to have your paper edited by a native English speaking professional editor. There are many editing services available for academic manuscripts and publication support services.

Research Paper Structure

With the above in mind, you can now focus on structure. Scientific papers are organized into specific sections and each has a goal. We have listed them here.

• Your title is the most important part of your paper. It draws the reader in and tells them what you are presenting. Moreover, if you think about the titles of papers that you might browse in a day and which papers you actually read, you’ll agree.
• The title should be clear and interesting otherwise the reader will not continue reading.
• Authors’ names and affiliations are on the title page.
• The abstract is a summary of your research. It is nearly as important as the title because the reader will be able to quickly read through it.
• Most journals, the abstract can become divided into very short sections to guide the reader through the summaries.
• Keep the sentences short and focused.
• Avoid acronyms and citations.
• Include background information on the subject and your objectives here.
• Describe the materials used and include the names and locations of the manufacturers.
• For any animal studies, include where you obtained the animals and a statement of humane treatment.
• Clearly and succinctly explain your methods so that it can be duplicated.
• Criteria for inclusion and exclusion in the study and statistical analyses should be included.
• Discuss your findings here.
• Be careful to not make definitive statements .
• Your results suggest that something is or is not true.
• This is true even when your results prove your hypothesis.
• Discuss what your results mean in this section.
• Discuss any study limitations. Suggest additional studies.
• Acknowledge all contributors.
• All citations in the text must have a corresponding reference.
• Check your author guidelines for format protocols.
• In most cases, your tables and figures appear at the end of your paper or in a separate file.
• The titles (legends) usually become listed after the reference section.
• Be sure that you define each acronym and abbreviation in each table and figure.

Helpful Rules

In their article entitled, “Ten simple rules for structuring papers,” in PLOS Computational Biology , authors Mensh and Kording provided 10 helpful tips as follows:

• Focus on a central contribution.
• Write for those who do not know your work.
• Use the “context-content-conclusion” approach.
• Avoid superfluous information and use parallel structures.
• Summarize your research in the abstract.
• Explain the importance of your research in the introduction.
• Explain your results in a logical sequence and support them with figures and tables.
• Discuss any data gaps and limitations.
• Allocate your time for the most important sections.
• Get feedback from colleagues.

Some of these rules have been briefly discussed above; however, the study done by the authors does provide detailed explanations on all of them.

Helpful Sites

Visit the following links for more helpful information:

• “ Some writing tips for scientific papers ”
• “ How to Structure Your Dissertation ”
• “ Conciseness in Academic Writing: How to Prune Sentences ”
• “ How to Optimize Sentence Length in Academic Writing ”

So, do you follow any additional tips when structuring your research paper ? Share them with us in the comments below!

Thanks for sharing this post. Great information provided. I really appreciate your writing. I like the way you put across your ideas.

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Online Guide to Writing and Research

The research process, explore more of umgc.

• Online Guide to Writing

Structuring the Research Paper

Formal research structure.

These are the primary purposes for formal research:

enter the discourse, or conversation, of other writers and scholars in your field

learn how others in your field use primary and secondary resources

find and understand raw data and information

For the formal academic research assignment, consider an organizational pattern typically used for primary academic research.  The pattern includes the following: introduction, methods, results, discussion, and conclusions/recommendations.

Usually, research papers flow from the general to the specific and back to the general in their organization. The introduction uses a general-to-specific movement in its organization, establishing the thesis and setting the context for the conversation. The methods and results sections are more detailed and specific, providing support for the generalizations made in the introduction. The discussion section moves toward an increasingly more general discussion of the subject, leading to the conclusions and recommendations, which then generalize the conversation again.

Sections of a Formal Structure

The introduction section.

Many students will find that writing a structured  introduction  gets them started and gives them the focus needed to significantly improve their entire paper. 

Introductions usually have three parts:

presentation of the problem statement, the topic, or the research inquiry

purpose and focus of your paper

summary or overview of the writer’s position or arguments

In the first part of the introduction—the presentation of the problem or the research inquiry—state the problem or express it so that the question is implied. Then, sketch the background on the problem and review the literature on it to give your readers a context that shows them how your research inquiry fits into the conversation currently ongoing in your subject area. 

In the second part of the introduction, state your purpose and focus. Here, you may even present your actual thesis. Sometimes your purpose statement can take the place of the thesis by letting your reader know your intentions. 

The third part of the introduction, the summary or overview of the paper, briefly leads readers through the discussion, forecasting the main ideas and giving readers a blueprint for the paper. 

The following example provides a blueprint for a well-organized introduction.

Example of an Introduction

Entrepreneurial Marketing: The Critical Difference

In an article in the Harvard Business Review, John A. Welsh and Jerry F. White remind us that “a small business is not a little big business.” An entrepreneur is not a multinational conglomerate but a profit-seeking individual. To survive, he must have a different outlook and must apply different principles to his endeavors than does the president of a large or even medium-sized corporation. Not only does the scale of small and big businesses differ, but small businesses also suffer from what the Harvard Business Review article calls “resource poverty.” This is a problem and opportunity that requires an entirely different approach to marketing. Where large ad budgets are not necessary or feasible, where expensive ad production squanders limited capital, where every marketing dollar must do the work of two dollars, if not five dollars or even ten, where a person’s company, capital, and material well-being are all on the line—that is, where guerrilla marketing can save the day and secure the bottom line (Levinson, 1984, p. 9).

By reviewing the introductions to research articles in the discipline in which you are writing your research paper, you can get an idea of what is considered the norm for that discipline. Study several of these before you begin your paper so that you know what may be expected. If you are unsure of the kind of introduction your paper needs, ask your professor for more information.  The introduction is normally written in present tense.

THE METHODS SECTION

The methods section of your research paper should describe in detail what methodology and special materials if any, you used to think through or perform your research. You should include any materials you used or designed for yourself, such as questionnaires or interview questions, to generate data or information for your research paper. You want to include any methodologies that are specific to your particular field of study, such as lab procedures for a lab experiment or data-gathering instruments for field research. The methods section is usually written in the past tense.

THE RESULTS SECTION

How you present the results of your research depends on what kind of research you did, your subject matter, and your readers’ expectations. 

Quantitative information —data that can be measured—can be presented systematically and economically in tables, charts, and graphs. Quantitative information includes quantities and comparisons of sets of data. 

Qualitative information , which includes brief descriptions, explanations, or instructions, can also be presented in prose tables. This kind of descriptive or explanatory information, however, is often presented in essay-like prose or even lists.

There are specific conventions for creating tables, charts, and graphs and organizing the information they contain. In general, you should use them only when you are sure they will enlighten your readers rather than confuse them. In the accompanying explanation and discussion, always refer to the graphic by number and explain specifically what you are referring to; you can also provide a caption for the graphic. The rule of thumb for presenting a graphic is first to introduce it by name, show it, and then interpret it. The results section is usually written in the past tense.

THE DISCUSSION SECTION

Your discussion section should generalize what you have learned from your research. One way to generalize is to explain the consequences or meaning of your results and then make your points that support and refer back to the statements you made in your introduction. Your discussion should be organized so that it relates directly to your thesis. You want to avoid introducing new ideas here or discussing tangential issues not directly related to the exploration and discovery of your thesis. The discussion section, along with the introduction, is usually written in the present tense.

THE CONCLUSIONS AND RECOMMENDATIONS SECTION

Your conclusion ties your research to your thesis, binding together all the main ideas in your thinking and writing. By presenting the logical outcome of your research and thinking, your conclusion answers your research inquiry for your reader. Your conclusions should relate directly to the ideas presented in your introduction section and should not present any new ideas.

You may be asked to present your recommendations separately in your research assignment. If so, you will want to add some elements to your conclusion section. For example, you may be asked to recommend a course of action, make a prediction, propose a solution to a problem, offer a judgment, or speculate on the implications and consequences of your ideas. The conclusions and recommendations section is usually written in the present tense.

Key Takeaways

• For the formal academic research assignment, consider an organizational pattern typically used for primary academic research. 
•  The pattern includes the following: introduction, methods, results, discussion, and conclusions/recommendations.

Mailing Address: 3501 University Blvd. East, Adelphi, MD 20783 This work is licensed under a  Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License . © 2022 UMGC. All links to external sites were verified at the time of publication. UMGC is not responsible for the validity or integrity of information located at external sites.

Table of Contents: Online Guide to Writing

Chapter 1: College Writing

How Does College Writing Differ from Workplace Writing?

What Is College Writing?

Why So Much Emphasis on Writing?

Chapter 2: The Writing Process

Doing Exploratory Research

Getting from Notes to Your Draft

Introduction

Prewriting - Techniques to Get Started - Mining Your Intuition

Prewriting: Targeting Your Audience

Prewriting: Techniques to Get Started

Prewriting: Understanding Your Assignment

Rewriting: Being Your Own Critic

Rewriting: Creating a Revision Strategy

Rewriting: Getting Feedback

Rewriting: The Final Draft

Techniques to Get Started - Outlining

Techniques to Get Started - Using Systematic Techniques

Thesis Statement and Controlling Idea

Writing: Getting from Notes to Your Draft - Freewriting

Writing: Getting from Notes to Your Draft - Summarizing Your Ideas

Writing: Outlining What You Will Write

Chapter 3: Thinking Strategies

A Word About Style, Voice, and Tone

A Word About Style, Voice, and Tone: Style Through Vocabulary and Diction

Critical Strategies and Writing

Critical Strategies and Writing: Analysis

Critical Strategies and Writing: Evaluation

Critical Strategies and Writing: Persuasion

Critical Strategies and Writing: Synthesis

Developing a Paper Using Strategies

Kinds of Assignments You Will Write

Patterns for Presenting Information

Patterns for Presenting Information: Critiques

Patterns for Presenting Information: Discussing Raw Data

Patterns for Presenting Information: General-to-Specific Pattern

Patterns for Presenting Information: Problem-Cause-Solution Pattern

Patterns for Presenting Information: Specific-to-General Pattern

Patterns for Presenting Information: Summaries and Abstracts

Supporting with Research and Examples

Writing Essay Examinations

Writing Essay Examinations: Make Your Answer Relevant and Complete

Writing Essay Examinations: Organize Thinking Before Writing

Writing Essay Examinations: Read and Understand the Question

Chapter 4: The Research Process

Planning and Writing a Research Paper

Planning and Writing a Research Paper: Ask a Research Question

Planning and Writing a Research Paper: Cite Sources

Planning and Writing a Research Paper: Collect Evidence

Planning and Writing a Research Paper: Decide Your Point of View, or Role, for Your Research

Planning and Writing a Research Paper: Draw Conclusions

Planning and Writing a Research Paper: Find a Topic and Get an Overview

Planning and Writing a Research Paper: Manage Your Resources

Planning and Writing a Research Paper: Outline

Planning and Writing a Research Paper: Survey the Literature

Planning and Writing a Research Paper: Work Your Sources into Your Research Writing

Research Resources: Where Are Research Resources Found? - Human Resources

Research Resources: What Are Research Resources?

Research Resources: Where Are Research Resources Found?

Research Resources: Where Are Research Resources Found? - Electronic Resources

Research Resources: Where Are Research Resources Found? - Print Resources

Structuring the Research Paper: Formal Research Structure

Structuring the Research Paper: Informal Research Structure

The Nature of Research

The Research Assignment: How Should Research Sources Be Evaluated?

The Research Assignment: When Is Research Needed?

The Research Assignment: Why Perform Research?

Chapter 5: Academic Integrity

Academic Integrity

Giving Credit to Sources

Giving Credit to Sources: Copyright Laws

Giving Credit to Sources: Documentation

Giving Credit to Sources: Style Guides

Integrating Sources

Practicing Academic Integrity

Practicing Academic Integrity: Keeping Accurate Records

Practicing Academic Integrity: Managing Source Material

Practicing Academic Integrity: Managing Source Material - Paraphrasing Your Source

Practicing Academic Integrity: Managing Source Material - Quoting Your Source

Practicing Academic Integrity: Managing Source Material - Summarizing Your Sources

Types of Documentation

Types of Documentation: Bibliographies and Source Lists

Types of Documentation: Citing World Wide Web Sources

Types of Documentation: In-Text or Parenthetical Citations

Types of Documentation: In-Text or Parenthetical Citations - APA Style

Types of Documentation: In-Text or Parenthetical Citations - CSE/CBE Style

Types of Documentation: In-Text or Parenthetical Citations - Chicago Style

Types of Documentation: In-Text or Parenthetical Citations - MLA Style

Types of Documentation: Note Citations

Chapter 6: Using Library Resources

Finding Library Resources

Chapter 7: Assessing Your Writing

How Is Writing Graded?

How Is Writing Graded?: A General Assessment Tool

The Draft Stage

The Draft Stage: The First Draft

The Draft Stage: The Revision Process and the Final Draft

The Draft Stage: Using Feedback

The Research Stage

Using Assessment to Improve Your Writing

Chapter 8: Other Frequently Assigned Papers

Reviews and Reaction Papers: Article and Book Reviews

Reviews and Reaction Papers: Reaction Papers

Writing Arguments

Writing Arguments: Adapting the Argument Structure

Writing Arguments: Purposes of Argument

Writing Arguments: References to Consult for Writing Arguments

Writing Arguments: Steps to Writing an Argument - Anticipate Active Opposition

Writing Arguments: Steps to Writing an Argument - Determine Your Organization

Writing Arguments: Steps to Writing an Argument - Develop Your Argument

Writing Arguments: Steps to Writing an Argument - Introduce Your Argument

Writing Arguments: Steps to Writing an Argument - State Your Thesis or Proposition

Writing Arguments: Steps to Writing an Argument - Write Your Conclusion

Writing Arguments: Types of Argument

Appendix A: Books to Help Improve Your Writing

Dictionaries

General Style Manuals

Researching on the Internet

Special Style Manuals

Writing Handbooks

Appendix B: Collaborative Writing and Peer Reviewing

Collaborative Writing: Assignments to Accompany the Group Project

Collaborative Writing: Informal Progress Report

Collaborative Writing: Issues to Resolve

Collaborative Writing: Methodology

Collaborative Writing: Peer Evaluation

Collaborative Writing: Tasks of Collaborative Writing Group Members

Collaborative Writing: Writing Plan

General Introduction

Peer Reviewing

Appendix C: Developing an Improvement Plan

Working with Your Instructor’s Comments and Grades

Appendix D: Writing Plan and Project Schedule

Devising a Writing Project Plan and Schedule

Reviewing Your Plan with Others

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3 Structure of a Scientific Research Paper

A primary way that scientists communicate with one another is through scientific papers.  We will model our Biocore lab reports on the format most commonly used by scientific journals.  Your lab reports should follow the guidelines described below unless the lab manual or your TA specifically tells you otherwise.   Some lab reports have a modified format or require only a subset of the standard sections listed below.

The figure below indicates the four main sections (Intro, Methods, Results and Discussion) that form the body of a scientific paper. Each section of the paper (except for “Title”) should begin with one of these terms as a heading These main sections are bookended on the front end with a Title and Abstract summarizing the whole document and on the back end by a Literature Cited and Appendices (optional) in support of the document.

Other classes and some scientific journals deviate from this format, and you should always consult the guidelines specified before preparing a paper for another class (or submitting a manuscript for publication ).

Introduction

Methods and materials.

• Results (including figures and tables)

Literature Cited

The Methods and Results are specific to your hypothesis and the experiment you performed.

Then the Discussion starts more narrowly focused on whether you support or reject your hypothesis, but then broadens to integrate your findings into the existing literature, and finishes with a conclusion that is based on the experimental evidence you present.

The title is a clear, specific statement of the subject of your report. Think of the words in your title as key search terms. It introduces the reader to your paper and lets them know what to expect.

Titles should:

• Be concise and informative and need not be complete sentences.
• Avoid filler words like “Studies on” or “Investigations of” and opening words like A, An, or The.
• Be as specific as possible.
• Avoid abbreviations and jargon.
• state the results.

*If your report constitutes the results of an experiment where you manipulated variables and analyzed the result, include the independent and dependent variables, the direction of your results, as well as the study organism/ subject in your title.

How will titles be evaluated? To see our expectations for your Title, see the  Biocore Research Paper Rubric in this Writing Manual.

In scientific journal articles, the first author listed is the primary author, and subsequent authors are listed according to the magnitude of their contribution to the study.  Research mentors such as principal investigators (PI’s) of labs, are typically listed last.  If all authors have made equivalent contributions to the article, then the paper will state that authors’ names are listed in alphabetical order.

In Biocore you will work within teams to do independent research projects, but we usually ask for individual lab reports because we want to give you many opportunities to work on your writing and thinking skills.  At other times we will ask you to submit group posters and PowerPoint presentations.  Here is how you should list teammates for various Biocore assignments:

• Individual papers or mini-posters:  List yourself first as the primary author under your title, then list teammates as contributors at the top of the page in alphabetical order. Also list your lab section and TA.
• Group posters or PowerPoint presentations: We assume that all of you have made equivalent contributions to these collaborative group assignments, so include all researchers’ names as authors in alphabetical order.

*Not all Biocore lab reports require abstracts! Research proposals generally do not require abstracts, but check assignment description for details.

The abstract forces the author to distill the essence of the paper to a very brief summary (100-200 words) .  Think of the abstract as the two-minute version of your entire experiment. Many readers use the abstract to decide whether they want to find and read the entire paper.

You must be concise. One way to do this is to summarize, in one or two sentences each :

• the rationale behind the experiment (goal of your experiment, model system, most important background information)
• your hypothesis
• the approach you took (how and what you actually tested)
• results or expected results
• conclusions/implications

Other tips:

• Always write the abstract last, after you thoroughly understand the experiment and its meaning.
• Abstracts should be understandable without referring to the rest of the paper.
• You do not cite references in an abstract. General and/or specifically applicable knowledge is assumed or is cited elsewhere in your paper.

Example Abstract From Systematic Observation Study

Adapted from paper by Kristin Magliocco (Fall 2009)

Phosphorus in the runoff to urban streams such as Willow Creek can lead to phosphorus build up and ultimately eutrophication of larger bodies of water. Rain gardens have been constructed on the UW Madison campus adjacent to Willow Creek to prevent accumulation of phosphorus in the creek itself. [Background] By slowing and delaying runoff from reaching the creek, the rain gardens are intended to retain phosphorus and, therefore decrease the amount of phosphorus that reaches the creek. [BR] To test the efficacy of the rain gardens, we hypothesized that there would be no significant difference in the phosphorus concentrations of the water in Willow Creek upstream and downstream of the boundaries of the northeast rain garden. [Hypothesis]We selected four replicate locations in the rain garden itself and in Willow Creek, both upstream and downstream of the rain garden, where we used a Hach phosphorus colorimeter to measure phosphorus concentration. [Approach] Our data supported our hypothesis, with the upstream mean concentration of 0.07335 ± 0.00471 mg/L and the downstream mean concentration of 0.08213 ± 0.0139 mg/L showing no statistically significant difference. [Results]We cautiously concluded that the rain gardens near Willow Creek do prevent further phosphorus accumulation in the stream, but pointed toward future studies focusing on amount of rainfall as an important factor in rain garden efficiency. [Conclusion]

How will abstracts be evaluated? To see our expectations for your Abstract, see the Biocore the Biocore Research Paper Rubric in this Writing Manual.

This section provides guidelines on how to construct a solid introduction to a scientific paper including background information, study question , biological rationale, hypothesis , and general approach . If the Introduction is done well, there should be no question in the reader’s mind why and on what basis you have posed a specific hypothesis.

Broad Question: based on an initial observation (e.g., “I see a lot of guppies close to the shore. Do guppies like living in shallow water?”).  This observation of the natural world may inspire you to investigate background literature on previous research by others or gather some initial data/ observations as a pilot study. Broad questions are not always included in your written text, but are essential for establishing the direction of your research.

Background information:   key issues, concepts, terminology, and definitions are needed to understand the biological rationale for the experiment. The background often includes a summary of findings from previous, relevant studies that introduce the study system, the independent and dependent variable. Remember to cite references, be concise, and only include relevant information given your audience and your experimental design. Your concise summary of background information should lead to specific scientific knowledge gaps that still exist.  (e.g., “No studies on lake guppy distribution to date have examined whether guppies do indeed spend more time in shallow water.”)

Testable Question :   these questions are much more focused than the initial broad question, are specific to the knowledge gap identified, and can be addressed with data.  (e.g., “Do guppies spend different amounts of time in water less than 1 meter deep as compared to their time in water that is greater than 1 meter deep?”)

View testable question diagram as pdf

Biological Rationale (BR): The BR explains why you expect your independent variable(s) to affect your dependent variable(s) in the way your hypothesis indicates. After you have summarized the background information relevant to the study, the “BR” provides the logic and reasoning for your hypothesis and experimental approach, describing the biological mechanism that connects your independent and dependent variables and the assumptions that provides evidence for why your hypothesis should be supported.  The biological rationale is based on your interpretation of the scientific literature, your personal observations, and the underlying assumptions you are making about how you think the system works. If you have written your biological rationale logically and clearly, your reader should see your hypothesis in your introduction section and say to themselves— “Of course this hypothesis is supportable. It seems very logical based on the rationale presented.”

Steps for Developing a BR—Based on your background information:

• Dependent Variable(s)- List key aspects of the dependent variable (DV) that are known (based on the scientific literature) and those that are unknown that you may need to assume or may be associated with a knowledge gap.
• Independent Variable(s)- List key aspects of the independent variable (IV) that are known (based on the scientific literature) and those that are unknown that you may need to assume or may be associated with a knowledge gap.
• Connection between DV and IV- List what is known and what you are assuming about the ways (mechanisms or relationships) in which the IV influences the DV , either directly or indirectly, either in the system you are studying, in a similar system, or a more distant dissimilar system. If possible, note literature that support any assumptions. The biological link between your IV and DV(s) is central piece of your BR.
• Based on #3, articulate the specific knowledge gap you hope to fill in this study.
• Generate a draft hypothesis based on steps 1-4.

Once you have done steps 1-5, start to sketch out your reasoning using a conceptual or graphic model

In Biocore, we will ask you to construct two different types of models as you are learning to develop your BR:

• Conceptual Model – a logical flow of ideas utilizing boxes and arrows to indicate how variables are connected and support your hypothesis. Conceptual models are helpful for developing logical thought progression but are generally not included in a paper or final presentation.
• Graphic or Visual Model – A cartoon or graphic depiction for how variables interact to result in your predicted outcome. Graphic models are often included in scientific posters and Powerpoint presentations, and sometimes in scientific papers.

See following sections for examples of Biological Rationale in the form of Conceptual and Graphic Models

Conceptual Model

In the Conceptual Model example below, the biological rationale is depicted as a logical flow of statements beginning with a testable question and ending with a hypothesis.

View conceptual model as a pdf

Graphic or Visual Model

Graphic or Visual Model uses cartoon diagrams and symbols to communicate the predicted interaction among variables and the mechanism by which they interact. Visual models use shorthand literature citations (superscript numbers) to indicate literature references that are further discussed in an oral presentation (poster or PowerPoint) or written narrative (paper).

Example Graphic Model of Biological Rationale appropriate for diagram in a paper, poster, or presentation. Adapted from poster by McKenna DeFoer, Sadie Gugel, Evan Polce, Kyrie Sellnow in Biocore 486, Organismal Biology lab.

Narrative : Scarification using sandpaper abates the seed coat of L. perennis. This process allows moisture to permeate the seed coat during stratification and initiates the biochemical pathway for germination (1. Diboll 2008). Similarly, exposing seeds to cellulose-derived smoke causes chemical scarification (2. Egerton-Warburton 1997). This type of smoke contains butenolide, a compound synthesized during the combustion of plant material that has been found to further stimulate germination (3. Keeley and Fotheringham 1997).

More on Biological Rationale:

• A thorough rationale defines your knowledge gap about the system that has not been revealed in scientific literature or from previous observation. The knowledge gap is the knowledge we are attempting to create. The interpretation of your experimental data and the integration of literature will fill or partially fill the knowledge gap. In order to fill the knowledge gap, you may need to make assumptions about how your system operates. Assumptions are aspects of the system that you are not testing directly, but you think are particularly important since they drive the direction of your specific hypothesis or general predictions. Sometimes students confuse the knowledge gap and assumptions. Data gathered during the experiment can address the knowledge gap but generally do not provide direct evidence to support or refute assumptions.
• Defining the BR is probably the most critical task for a writer, as it tells your reader why your research is biologically meaningful. It may help to think about the rationale as a link between your independent and dependent variables, because the rationale answers these questions— how is this investigation related to what we know, what assumptions am I making about what we don’t yet know, AND how will this experiment add to our knowledge?  
• Expect to spend time and mental effort on your BR. You may have to do considerable digging into the scientific literature to define how your experiment fits into what is already known and why it is relevant to pursue.
• Be open to the possibility that as you work with and think about your data, you may develop a deeper, more accurate understanding of the experimental system. You may find the original rationale needs to be revised to reflect your new, more sophisticated understanding.
• As you progress through Biocore and upper level biology courses, your rationale should become more focused and matched with the level of study i.e ., cellular, biochemical, or physiological mechanisms that underlie the rationale. Achieving this type of understanding takes effort, but it will lead to better communication of your science.

Hypothesis / Predictions: specific prediction(s) that you will test during your experiment. For manipulative experiments , the hypothesis should include the independent variable (what you manipulate), the dependent variable(s) (what you measure), the organism or system , the direction of your results, and comparison to be made. See the following examples.

If you are doing a systematic observation , your hypothesis presents a variable or set of variables that you predict are important for helping you characterize the system as a whole, or predict differences between components/areas of the system that help you explain how the system functions or changes over time.

Note that hypotheses/ predictions you develop in Biocore lab are much more specific than the general hypotheses that guide the research questions you encounter in scientific literature or in faculty research labs. That is because the research projects you do in Biocore are short-term, small(er) in scale or context specific, and therefore require greater specification to be testable within our class context.

Experimental Approach: Briefly gives the reader a general sense of the experiment, the type of data it will yield, and the kind of conclusions you expect to obtain from the data. Do not confuse the experimental approach with the experimental protocol . The experimental protocol consists of the detailed step-by-step procedures and techniques used during the experiment that are to be reported in the Methods and Materials section.

***Some Final Tips on Writing an Introduction***

• As you progress through the Biocore sequence for instance, from organismal level of Biocore 381/382 to the cellular level in Biocore 383/384, we expect the contents of your “Introduction” paragraphs to reflect the level of your coursework and previous writing experience. For example, in Biocore 384 (Cell Biology Lab) biological rationale should draw upon assumptions we are making about cellular and biochemical processes.
• Be Concise yet Specific: Remember to be concise and only include relevant information given your audience and your experimental design. As you write, keep asking, “Is this necessary information or is this irrelevant detail?” For example, if you are writing a paper claiming that a certain compound is a competitive inhibitor to the enzyme alkaline phosphatase and acts by binding to the active site, you need to explain (briefly) Michaelis-Menton kinetics and the meaning and significance of Km and Vmax. This explanation is not necessary if you are reporting the dependence of enzyme activity on pH because you do not need to measure Km and Vmax to get an estimate of enzyme activity.
• Another example: if you are writing a paper reporting an increase in water flea heart rate upon exposure to caffeine you need not describe the reproductive cycle of water fleas unless it is germane to your results and discussion. Be specific and concrete, especially when making introductory or summary statements.

Where do you discuss Pilot Studies? Many times it is important to do pilot studies to help you get familiar with your experimental system or to improve your experimental design. If your pilot study influences your biological rationale or hypothesis, you need to describe it in your Introduction. If your pilot study simply informs the logistics or techniques, but does not influence your rationale, then the description of your pilot study belongs in the Materials and Methods section.

How will introductions be evaluated? To see our expectations for your Introduction, see the Biocore Research Paper Rubric in this Writing Manual.

Example Introductions

Example introduction from systematic observation study.

Adapted from a paper by Will Klein 2009

Throughout history, humans have discovered and used chemicals derived from plant extracts as antimicrobial compounds for medicinal purposes. Although useful to humans, why would a plant create an antimicrobial defense that affects the growth of bacteria?  [broad study question]    As non-mobile organisms, plants have evolved mutually beneficial associations with beneficial microbes (Brooker et al. 2011) and a full arsenal of adaptations for defense against pathogenic microorganisms (bacteria, viruses, fungi). Borchardt et al. (2008) did an antimicrobial screening of 339 plant species growing in Minnesota and Wisconsin, many of which are prairie plant species. The researchers tested aerial plant parts (leaves, stems, flowers) for growth inhibition of one, two or three common mammalian pathogens ( Escherichia coli , Staphylococcus aureus, Candida albicans) and found 109 species inhibited growth of at least one microorganism.  Leave extracts of Silphium sp. , a species found in the Biocore Prairie, contains antimicrobial compounds that inhibit the growth of many types of Gram-negative and Gram-positive bacteria (Kowalski and Kedzia, 2007; Kowalski, 2008). [background information]

Plants may produce chemical defense in the form of antimicrobial compounds contained in stems, roots, leaves, bark, flowers or fruits. [BR: assumption]  By investing energy to generate these antimicrobial compounds, the plant maximizes its likelihood to succeed in its particular ecological niche (i.e. the Biocore Prairie) and improves its biological fitness. [BR: assumption ]  No studies howver have directly examined the effect of native Biocore prairie plant extracts on indigenous soil bacteria growth.   [testable question]

Through preliminary investigations in the Biocore Prairie during summer 2010, we sought to find prairie plant species and extracts from different plant parts (roots, leaves or stems) that would inhibit soil bacteria-bacteria cultured from soil that the prairie plants are growing in. Although most soil bacteria are beneficial or do nothing to affect prairie plants, we reasoned that plant species coexisting in the same environment with particular soil microbes may have efficient defense mechanisms towards pathogenic “prairie soil” bacteria. [BR: assumption] Huechera richardsonii, Monarda fistulosa, and Euphorbia corollata are three species common to the Biocore Prairie. Although leaf tissue of these three species have all been shown to contain antimicrobial properties against S. aureus (Borchart et al. 2008), how extracts from these species influence growth of bacteria indigenous to the Biocore Prairie is not known. [knowledge gap] We believe these plant species will contain antimicrobial properties in leaves to protect the tissue from microbial leaf pathogens that also occur in the soil.  [BR:  assumption]

We hypothesized that leaf extracts of Huechera richardsonii, Monarda fistulosa, and Euphorbia corollata would exhibit antimicrobial properties on the bacteria found in their native environment. [hypothesis] Our approach was to grow soil bacteria collected from the Biocore Prairie on agar plates, and then expose bacteria to leaf extracts absorbed on filter paper discs and measure the extent to which the extracts inhibited bacterial growth. [approach]

*Note: If you are a Biocore 382 student—do not worry if you don’t understand the scientific content in these two examples. We will get there! These examples are provided to refer to as you progress through the curriculum

Example 4: Good Introduction from manipulative experiment in Cell Biology Lab

(adapted from a poster by Kari Esselman, John Kinzfogl, Amber Kugel, & Katie Luettgen, Spring 2003)

In the yeast ( Saccharomyces cerevisiae ) mating signal transduction pathway, interaction of the complete –mating factor with

the G-protein-coupled receptor on a MAT-a cell induces cell cycle arrest in the G1 phase, morphological changes or “shmooing,” and activation of genes involved in the mating process (Hoopes et al., 1998).  In Saccharomyces cerevisiae , the amino acids Trp1, Lys7 and Gln 10, the central ß –turn conformation, and the amino acids near the C-terminus are directly involved in the binding of the a–mating factor to the receptor (Saskiawan et al., 2002).  Altering the structure of the a –factor produces a conformational change in the receptor that is distinct from the conformational change of the normal a –factor, consequentially altering or even inhibiting the mating cascade of events (Bukusoglu and Kemmess. 1996).  Elimination of Lys7 and Gln10 from the a –mating factor results in greater than a 100 fold decrease in mating signal transduction (Xue et al., 1996). [all background info]

It is unclear whether elimination of amino acid residues other than Lys7 and Gln10 in the a –mating factor also decrease the yeast mating response. [broad question]   When introduced to MAT-a Saccharomyces cerevisiae cells, this sort of a – factor fragment could: 1.bind to the receptor site and induce the same change that the complete a –mating factor would; 2. bind to the receptor site but not induce the same changes as the complete a –factor, or 3.not bind to the receptor site at all. [BR: assumed biological mechanism]   If the mating response to this fragment is different than normal (BR: assumption) , this would indicate which amino acid side groups are important in binding the receptor.  An examination of Saccharomyces cerevisiae response to an a –mating factor fragment missing amino acids other than Lys7 and Gln10 would thus increase our understanding of the specificity of the a –factor receptor for its ligand. [BR: study goal/broader implication]

We hypothesized that the introduction of an a –mating factor fragment missing amino acids 7 through 13 to MAT-a Saccharomyces cerevisiae cells would cause more budding and less mating gene transcription and shmooing, as compared to the response to the complete a –factor. [hypothesis]   We tested this hypothesis by adding this a –factor fragment to yeast cells transformed with a plasmid containing the FUS1 promoter attached to the lacZ reporter gene and recording the resulting morphological changes (budding and shmooing) and ß-galactosidase (ß -gal) activity. [approach]

Example 5: Good Introduction from manipulative experiment in Organismal Biology Lab

(adapted from a paper by Matt Young, Fall 2003)

The diving response is a set of characteristic reactions following the immersion of certain body parts in water.  It is observed primarily in diving mammals and ducks, but humans have also elicited the response, perhaps as a trait that was not selected against during their evolution (McCulloch et. al. 1995; Hlastala and Berger 2001).  Gooden (1993) clearly demonstrated that the diving reflex prepares the animal’s body for the effects of long periods of apnea (breathing cessation) associated with being underwater.  It does this by decreasing oxygen consumption and redirecting blood flow out of the peripheral structures and towards the central organs such as the heart and brain.

McCulloch et. al. (1995) showed that the diving response is initiated by the stimulation of the trigeminal (Vth cranial) nerve, a primary sensory supply from the face, including the nose and forehead areas.  Stimulation of this nerve results in a complex series of sympathetic and parasympathetic nerve activations (Gooden 1994).  Increased parasympathetic activity triggers the vagus nerve to inhibit the cardiac pacemaker, resulting in reduced heart rate (Andersson et. al. 2000).  Limb vasoconstriction occurs in response to increased sympathetic nerve activity, which results in increased mean arterial blood pressure (MABP) (Andersson et. al. 2000; Gooden 1994). [all background info in previous paragraphs]

Along with submersion in water, apnea is believed to be a major component in eliciting a proper diving response.  It is still not clear, however, how necessary apnea is for the induction of the diving response or the mechanism for this induction (Gooden 1994). [broad question] Campbell et. al. (1969) argued that apnea, whether voluntary or involuntary, is essential for a diving response to occur, while Andersson et. al. (2000) found that facial immersion with eupnea resulted in reduced, but noticeable, diving responses.  [background info]

It is believed that apnea stimulates chemoreceptors and thoracic stretch receptors in order to exert its effects.  The thoracic stretch receptors are sensitive to movements in the airways, while chemoreceptors are sensitive to the oxygen lack associated with breath-holding.  Increased firing of these two receptors due to their respective stimuli is believed to be the method by which apnea influences the diving response, but the exact pathway this firing takes to exert such effects remains unclear.  It may either directly affect the cardiovascular centers, or indirectly affect the cardiovascular system via the medulla (Gooden 1994). [background info which identifies knowledge gap]

Does apnea significantly increase the human diving response during facial submersion?  [testable question]   It seems plausible that simultaneous activation of the trigeminal nerve, thoracic stretch receptors, and arterial chemorecptors would produce a more pronounced cardiovascular diving response. (BR: biological assumption)  The goal of this experiment is to examine whether the diving response in eupneic (normal breathing) situations is significantly different than that observed during apneic situations.  [BR: study goal] We will focus on heart rate and blood pressure changes, two of the many responses associated with the diving response.   If heart rate and blood pressure changes during apneic submersion are significantly greater than those observed during eupneic submersions, this would indicate that simultaneous stimulation of the trigeminal nerve, thoracic stretch receptors, and chemoreceptors produces a greater cardiovascular response than stimulation of the trigeminal nerve alone. [BR: assumed mechanism]

We hypothesized that diving responses in human participants would be more pronounced in those experiencing apnea during immersion compared to those experiencing eupnea.  More specifically, we expected non-breathing participants’ heart rates to decrease and blood pressures to increase significantly more than breathing participants in response to facial immersion in cold water. [hypothesis]

We tested this hypothesis by having 12 human subjects immerse their foreheads, noses, and cheekbones in cold water.  We used a paired analysis to determine whether the change in heart rate and blood pressure from just prior to immersion to the end of immersion was different during apneic as compared to eupneic submersions.  [approach]

This section is often the easiest to write since it is simply a clear explanation of the specific procedures, techniques , and materials you used .  In some cases ( e.g. , the projects carried out in the Biocore Prairie), it is necessary to include procedures carried out by previous classes as well.  Provide enough details that a knowledgeable reader ( e.g ., a Biocore peer who is not enrolled in lab) could replicate the experiment.  This will also allow him/her to evaluate whether to trust your findings.  In the case of field investigations, include a description of the type of community and the location of the site studied.

Mathematical manipulations or statistical analyses applied to the data should be explained under a subheading, but keep these brief.  Although calculations are not normally included in a scientific paper, we sometimes ask you to include examples to check whether you are doing them correctly.  If this is the case, put them in an appendix at the end of the paper.

Focus on essentials that affect the results .  For example, in a genetics experiment with flies, it is important to state whether the females used for the crosses were virgins; it is not necessary to list the type of food or anesthetic used. However, these details would be important if your experiment was testing how different diets affected fruit fly activity level or some other physiological parameter. In cases where detailed protocols are given in the lab manual, merely cite the appropriate chapter of the lab manual, note any details relevant to the experiment but not specified in the protocol ( e.g. , identify the particular strain of organism you and your teammates used when several were available), and describe any manipulations you made that are not outlined in the manual. Include only what is vital for the reader’s understanding of how the results were obtained.  (E.g., Drawing white poker chips out of a 1 quart Babcock Vanilla flavored ice cream container to get two numbers to pace out and place quadrats is not as important as the fact that quadrat placement was random.) If you are having trouble deciding what to put in and what to leave out, consult with your TA, peers, or other instructional staff for guidance before handing in your final paper.

• Use subheadings, including one called “data analysis”
• Describe your schedule of procedures in chronological order (if it makes sense to do so)
• When writing a final paper, use the past tense for this section (because you refer to procedures that you carried out in the past).  When writing a proposal, use future tense.
• Report final concentrations (in molar, millimolar, micromolar etc). rather than final volumes (see table below). Readers can replicate concentrations, but often find it difficult to discern concentrations when only volumes are reported.

Example of Good Methods text

(Excerpt adapted from a paper by Beth Theusch, Biocore 384, Spring 2003:  Inorganic phosphate competitively inhibits alkaline phosphatase-catalyzed hydrolysis of p-nitrophenylphophate )  

Pilot Study*

A pilot study using various Pi concentrations but a constant substrate concentration close to the Km value was conducted in order to determine a Na2HPO4 concentration that has a moderate effect on initial reaction velocity to use in the inhibitor kinetics study.  We tested a range of concentrations between 2.5 uM and 200 uM Na2HPO4 in tubes containing 0.05 M Tris-HCl, pH 8.6, 0.05 mM pNPP (the approximate Km value), and 4 ug/ml bovine intestinal alkaline phosphatase in a total volume of 5 ml.  There was a control with no Na2HPO4 added and a blank with no enzyme added.

Experimental Protocol

The inhibitor kinetics study involved two sets of replicated reactions over a 0-0.5 mM range of pNPP substrate concentrations.  One set of reactions was conducted in the absence of inhibitor and used as a control.  The other set of reactions had a uniform concentration of Pi inhibitor, which was determined to be 0.05 mM from the pilot study, added to each tube.  All tubes had 0.05 M Tris pH 8.6, 4 ug/ml alkaline phosphatase, and the appropriate amount of distilled water to bring the total volume of each tube to 5 ml.  In each case, there was a control with no substrate added and a blank with no enzyme added.  The pH of the Na2HPO4 salt solution was checked to ensure that the pH was approximately the same in the uninhibited and the inhibited reactions.  Four replicates were performed for both the inhibited reaction and non-inhibited reaction.

For a complete protocol of the non-inhibited experiment, refer to “Enzyme Catalysis” in the Biocore Cellular Biology Lab Manual (Becker, Metzenberg, Dehring, 2003).  For the inhibitor kinetics study, the product concentrations were used to calculate the initial reaction velocities at each substrate concentration in the presence and absence of inhibitor.  Michaelis-Menten curves and Lineweaver-Burk plots were then generated to compare the values of Km and Vmax for the inhibited and uninhibited reactions.  Ki was determined using the relationship that the inhibited Km = (1 + [inhibitor] / Ki) times the uninhibited Km.

Statistical Analysis

We performed an independent sample T-test to determine whether the differences between the average Km and Vmax values between the inhibited and uninhibited reactions were statistically significant.

*Note: Not all papers require the inclusion of pilot studies in the Methods section.  Discuss this with your instructors.

How will methods/materials be evaluated? To see our expectations for your Methods & Materials, see the Biocore Research Paper Rubric in this Writing Manual.

The Results section is a logically organized presentation of your observational and numeric data .  This is an opportunity to emphasize points or trends that you will be focusing on in your discussion. In many cases the organization and subheadings of this section should be consistent with those of the Methods and Materials section.

Before you start writing, make sure you have discussed the data and have shared your plan for analysis with your group members. Your group should share a common data set and, therefore, should be working with the same mean, standard deviation, and other descriptive statistics. As long as all group members have the same raw data set, you may choose to display the data differently.

There are usually two parts to this section:

• tables and figures

Text :  The key purpose of the text in the results section is to point out and emphasize patterns in your data. You may choose to illustrate some of these patterns, especially those that pertain to your hypothesis, in figures or tables. However, each figure and table needs accompanying text to point out the obvious—or sometimes the not so obvious.

• Briefly describe, but do NOT make conclusions about ( i.e ., interpret) your data here — save that for the Discussion section .
• Point out any trends. (Trends are relationships between one variable and another. e.g ., as variable one changes, variable 2 tends to change in a consistent way.)
• Note differences or similarities between treatment groups.
• If you perform statistical analyses, report any significant biological differences you found, followed by pertinent statistical summary information (test score such as a “t” or “F” value, degrees of freedom, one or two-tailed p-value; see Biocore Statistics Primer for more info).

Refer your reader to “Table 1” or “Figure 1” as you explicitly identify relationships, patterns, or general trends that you see in the data.  Remember that relationships that are obvious to you may not be obvious to someone who has not carried out the experiment.

• Never write a sentence that just tells the reader where the data are. Point out to your reader the general trends in the data, then refer to the figure or table parenthetically.
• When using the term “significant” in your results section recognize that it has a specific connotation in science that reads “statistically significant.” Therefore, use the term “significant” when explaining differences you observe only if you found statistically significant differences.

The Results section should not be controversial since you are merely reporting findings, not saying what you think they mean.  Avoid judging your data as “good” or “bad.”  Data are facts and facts simply are what they are.  Remember: you are not graded on whether your experiment “worked” or on your results; you are graded on how you handle them .   Always report what you saw , not what you think you should have seen.

See the following excerpt from a good Results section describing data from a systematic study.

Example of a Good Results Section from a Systematic Observation Study

(excerpted from a Biocore 382 paper by Kim Treml, Fall 2003)

Water Quality

Water quality testing revealed a mean pH of 6.67 +/-0.07 pH units (Table 1).  Mean dissolved oxygen and dissolved carbon dioxide were 3.4 +/- 0.4ppm and 55 +/-3ppm respectively.  Also, the total phosphorus was measured as 0.51 +/-0.5mg.L and conductivity, measured in microsiemens, was 1,063 +/-17μs.  All means were computed with n=45.  Both conductivity and phosphorus fall far out of range of optimal water quality levels for a healthy aquatic ecosystem (Table 1).  The measured phosphorus level is an order of magnitude larger than what is recommended by the EPA.  Conductivity is twice as high as the ideal level in a freshwater ecosystem. [RESULTS TEXT]

Table 1. Water quality data obtained from the University Bay marsh in 2003.  Each value represents the mean of 45 trials.  The error margin is + or – 1 standard error.  Optimal data ranges for a healthy aquatic ecosystem are shown for comparison.  [TABLE LEGEND]

Macroinvertebrate Diversity

Macroinvertebrate species in the University Bay marsh were catalogued and presence or absence of each species was noted.  Figure 3* depicts the calculated frequency of each species per 500mL.  The species are approximately organized on the chart from left to right with increasing pollution tolerance as described on North Carolina State University’s water quality webpage (2003).  The highest frequency in both 2002 and 2003 exists among organisms around the mid-range of pollution tolerance.  Orb snails, scuds, backswimmers, copepods, seed and clam shrimp, nematodes and tubifex worms were present in over half of our samples in either 2002 or 2003.  Species indicative of very high water quality or very low water quality were less frequent compared to species indicative of the mid range.  Nonetheless, the data show an increase in the variety of species present from 18 species in 2002 to 26 in 2003.  [RESULTS TEXT]

* Figure 3 not shown in this Writing Manual

Tables and Figures:

Tables and figures are key elements of a scientific paper.

• Tables are organized lists of numbers, ideas, or other data.
• Figures are graphs, charts, diagrams, or photos.

Why use tables and figures?  First, they offer a concise way to present a large amount of information.  Second, they carry the bulk of the experimental evidence needed to support your conclusions.  Third, they offer the reader a chance to assess your data and determine whether or not your conclusions are valid.  Finally, the values in them can be used by other scientists who wish to build on your work.  Usually, summarized (e.g., averages and measures of variation) rather than raw data are included in a paper.  Always make it clear whether you are presenting actual data or averages.  (In some cases we will ask you to include raw data as an appendix.) Please refer to the Biocore Statistics Primer for directions on producing figures in Excel.

Each table or figure should be referred to in the text of your paper at least once.  If you have nothing to note about a particular table or figure, leave it out.  Identify and number tables or figures according to the order they appear in the text (Table 1, Table 2, Figure 1, Figure 2, etc.).  This way the reader will know exactly what data you are discussing.

Tables and figures should be neat, logically organized, and informative.  If properly prepared, they can stand independently of the paper.  Always remember that readers are not familiar with your data.  A table or figure that seems self-explanatory to you may not seem so to a reader.

Here are some rules for presentation of graphs and tables:

• Present your final data in table or graphical form. The choice of table or figure should be based on the type of data you have. If you are trying to show trends or simple comparisons it may be best to use a figure. If you have long lists or many comparisons to be made across groups a table may be more appropriate. [ DO NOT present the same data in both table and graphic form.]
• The most common way to present graphical data is either an XY scatterplot for continuous data or a bar chart for categorical data/ results of statistical comparison of the means of two or more groups.
• Keep it simple! The amount of time it takes a reader to interpret a figure is inversely proportional to how well those data are presented. Do not overuse transformations or ratios if they are unnecessary for accuracy and clarity of your results.
• Clearly label all axes or columns including units ( e.g. Time (min.), Concentration (mM), Mass (mg)). Describe any symbols you use in your graphs using a KEY (see figures below for examples of keys).
• POOR LEGEND: Enzyme activity vs. salt (Avoid using the term vs)
• BETTER : Average alkaline phosphatase activity for concentrations of NaCl from 0.1 to 1 mM. The substrate for the reaction was ATP at a concentration of 2 mM for a total reaction time of 3 minutes. Columns represent mean values (N=3) with error bars representing ± 1 SE.
• Put table legends above a table. Put figure legends below or to the side of a figure.
• Do NOT create titles for figures or tables. Instead of a title, use a simple legend numbering each table and figure consecutively is sufficient. Do not use titles like “Chart 1” that are automatically generated by Excel.
• For graphs that present an average value as a single point or bar, include error bars and state what they represent. Usually, this will be 1 standard deviation (SD) or 1 standard error (SE) on either side of the mean (see figure 1 below for an example).
• For tables presenting means, include some measure of variation (SD or SE). (See Table 1 above for an example of this).
• State the number of samples used to calculate an average. If you measured the height of 12 purple cone flower plants and reported an average height of 0.82m, indicate the number of samples used to generate that statistic as n=12.
• Do not connect the points on a line graph unless you really mean to say that the values in between the points shown should follow the line drawn. Trend lines have very limited predictive value or validity when connecting 3 points or less.  

Drawing a diagram or presenting a photomicrograph:  Drawn diagrams or photographs taken from a microscope and their legends should contain enough information that a reader can understand (as near as possible) what you actually observed and the conditions surrounding the observation.   Diagrams must be large enough to show significant details of what you observed.  In practice, this generally means that each diagram should cover at least a quarter of an 8.5×11” page .  Indicate the type of microscopy used and the total magnification in your legend.  Include a scale on your drawing.  Define the experimental conditions and include notes on the process of your investigation.  See Figures A-7, A-13, and A-14 in the World of the Cell’s “Principles & Techniques of Microscopy” for examples of good figure legends.

Example of Good Results bar graph

Example of Good Results scatterplot

(excerpted and adapted from a presentation by Jennifer Rowland, Beth Rollmann, Simona Rosu, and Christopher Luty, Biocore 384, Spring 2003; Gramicidin Decreases CO2 Consumption in Elodea)

Figure 2: Change in dissolved CO2 levels in water surrounding six Elodea sprigs (6 cm in length) in 75 ml culture tubes over 100 minutes of light exposure. Dissolved gramicidin concentrations ranged from 0 to 0.8 µM.  Each data point represents the mean of N=11-15 culture tubes for each gramicidin concentration plus/minus one standard error.

view this figure as a pdf

Example of Good Table

(adapted from Jenna Voegele paper on water quality in Willow Creek, Biocore 382, Fall 2004)

Table 1. Mean values of water chemistry tests from upstream and downstream sampling locations during a three day study period, Sept 14-16, 2004.  Variation is shown as ± 1 SE next to each mean value, followed by sample size (in parentheses) in which varied for each test and sampling location. Note the smaller sample size for the nitrate-N test.

Writing a figure legend for a drawing or micrograph:

If you are including an image (drawing or photomicrograph) in your paper, highlight attributes of the image that are important for your paper and to your reader. If the reason for including the image is to highlight anatomy, you may want to label structures and include a description of movement or other important observations in the figure legend. When writing a figure legend to accompany a photo or drawing, include enough information so that a reader can understand (as near as possible) what you actually observed and the conditions surrounding the observation. This means that you should indicate the type of microscopy used (phase contrast, bright field, fluorescence, etc.) and any notes regarding the preparation (e.g., mounted in ProtoSlow, water or saliva, with coverslip, types of stains used, etc.).  Also indicate the total magnification in your legend.  Diagrams must be large enough to show significant details of what you observed.  It is important to include a scale on your drawing.

Click on the three purple icons in the diagram below for more information about each element.

Figure 1.1  Micrograph of the protozoan Pelomyxa carolinensis viewed under phase contrast microscopy, magnification 100X.  The specimen is mounted in ProtoSlow and coverslip to reduce its movement.   Plasmagel streams readily into pseudopodia (seen at the bottom right of the photo) allowing the amoeba to slowly crawl across the field of view.

In the figure descripton above, the writer has indicated the type of microscopy (phase contrast microscopy, magnification 100X) and the total magnification (100X).

How will results (including text & figures/tables) be evaluated? To see our expectations for your Results, see the Biocore Research Paper Rubric in this Writing Manual.

This is where you interpret your results for the reader .  It is the most important part of your paper and often one of the most difficult to write. The discussion section is NOT a restatement of your results, but rather where you provide your insight on the investigation through logical analysis. Key elements of your discussion section include:

• BROAD STUDY QUESTION that your research is trying to address
• SUPPORT/REJECT HYPOTHESIS
• INTERPRET the dependent variable measured (if multiple variables are measured you  interpret each variable independently and then INTEGRATE variables for overall interpretation of data)
• Formulate argument for your conclusions, emphasizing how your data do or do not support your biological rationale & by comparing with relevant findings in the literature
• NEW KNOWLEDGE that your investigation has generated: highlight the knowledge gap that your data help address, and the implications of your work. Introduce at least one new paper from the scientific literature to help you discuss or support your findings.
• EVALUATE confidence in experimental design and reliability of data
• NEW QUESTIONS and FUTURE STUDIES that the new knowledge inspires
• UNEXPECTED OBSERVATIONS are unique observations not collected in rigorous way but still intriguing and could inspire new investigations
• CONCLUSION brief statement as summary.

The organization of your discussion section is not fixed but rather it is driven by the reliability of the data you collect. The discussion should complement the logic set up with your biological rationale in the Introduction.

The following is not an appropriate discussion section: “Our data supported the hypothesis. The results were what we expected (see Results section).”  Instead, state specifically what you observed in your data, and the conclusions you feel confident you can make based on the evidence you gathered. The Discussion should formulate and support a logical argument , leading the reader through the specific conclusions drawn from the data to their more general implications beyond the experiment.

Elements in the Discussion Section

Broad Study Question

What is the broad question that your research is trying to address? State your question clearly in the opening paragraph.

  Support or Reject Hypothesis :

• If you have conducted a manipulative study, restate your hypothesis and whether you support or reject your hypothesis referencing appropriate data . (Note that finding no difference between two treatments is a result).
• Critically evaluate your biological rationale, experimental design, data collection, and explicit/implicit assumptions throughout. After this evaluation, you should be able to support or reject your hypothesis….OR you may feel that you did not fully test your hypothesis after all. A key step here is to look at your controls and variation in your measurements. How much variation surrounds your controls? How reliable and accurate are your measurements?
• IMPORTANT NOTE: finding no difference between treatments is NOT an inconclusive result–No difference is a very valid result that contributes to a conclusion for either supporting or rejecting a hypothesis!

Interpreting Data : If you feel that your protocol allowed you to test your hypothesis,

• Interpret each piece of data presented in the results independently and evaluate the reliability of the data.
• Discuss how these data are similar (confirm) or contrast with what is reported in literature you presented in the introduction OR new literature you discovered after you completed your experiment. Explain the trends you feel are important to support your conclusion(s) and evaluate how this supports or contradicts the biological assumptions you outlined in your biological rationale. Be prepared to detach yourself from your original biological rationale in explaining or being critical of your results.
• Combine and integrate the multiple types of reliable data you collected and discuss how together they inform the broad question (only combine data you are confident in).

Generating New Knowledge

Describe how your experiment contributes to the knowledge gap you identified in your introduction. Cite similar, contrary and/or supportive literature.

• If your data supported your hypothesis: guide your readers through the steps in your reasoning referring back to your biological rationale to provide context.  Present the arguments that explain how your experimental approach and the pieces of evidence (data) convince you of your conclusion. Explain how do your findings add to those that others have observed.  Compare your findings with information from the literature (this often requires a post-experimental literature search), citing appropriate references that support for your results. These references include many that you cited in your Introduction section; briefly summarize them but avoid redundancy.
• If your results are contrary to your hypothesis , you need to speculate the reasons for this difference, continue your literature search to explain your alternative results.  Are your results consistent or inconsistent with others findings—why or why not? Distance yourself from the project while writing and be reasonably critical of your data. What evidence do you have that your biological rationale is acting? Is the mechanism you propose in effect? Evaluate the key biological assumptions in your biological rationale which were not correct.
• Implications of your findings- How does your experiment add to the current body of knowledge? Speculate on the implications of your findings. It is essential that you refer back to your biological rationale . Implications are specific, reasonable extensions of your results or the meaning of your results for the larger picture.  Be careful, however, with your choice of words: state implications as logical possibilities rather than as fact.  Your results may lead to new insights about relationships in nature.  An unexpected result (if it holds up on repeating the experiment) may yield insight to guide a more effective experimental approach.

Evaluate Confidence in Experimental Design and Data Reliability/Quality

• Evaluate the strengths and weakness of your experiment and your confidence (or lack of) in your experimental design. Explain how these factors allow you to gauge the strength of your conclusion(s). Always address whether your protocol allowed you to truly test your hypothesis (see special note about inconclusive results in ‘support or reject hypothesis’ section above). In some cases you may discover unexpected inaccuracies in your data or that the methods you used were not appropriate or precise enough to address your question or test your hypothesis. Address the errors, unresolved issues and speculate how the experimental approach might be improved. Inconclusive results may show that you weren’t asking a relevant question in the first place or that the experiment was not able to test the question you posed.  This, in turn, can generate specific new questions and experimental approaches. Avoid making a laundry list of mistakes you made in carrying out your experiment.   Only mention errors if they help explain unexpected data values and/or lead you to conclude that your methods did not allow you to test your hypothesis.
• Evaluate reliability of data – Once you have established that your experimental design was appropriate to address your original question, you must also evaluate how well you carried out your intended design and what that means to your data reliability ( e.g . evaluating whether the variation you see between samples is natural variation or experimenter’s error). How good are your data? Consider the variability in your data (variance, standard deviation, standard error). Did you have enough replicates? Did you have a large degree of experimental error? What are the implications of variability? Do not over-interpret your data . Recognize the magnitude of the variation within your data and the level of departure you would need to conclude true differences. In most cases you are trying to attach meaning to a group of numbers generated by some procedure.  Help your readers make sense of these numbers by explaining how the patterns and relationships you observed reflect the biological concepts or issues you set out to explore.  How do your data fit with your biological rationale?

New Questions and Future Studies : Science is built on an iterative cycle of questions, experiments, results and conclusions. Often it is appropriate to suggest the next step in the investigation.  Be sure to include the reasoning that leads to your insights .  Your experiment will likely provide many opportunities to ask new questions and suggest future studies.

Final Conclusion : End your paper strongly with a clear, brief conclusion that relates directly to the question, hypothesis, or knowledge gap you stated in the Introduction.

If you get stuck :  The hard work of making meaning of data will be easier if you have a clear idea of what it was that you set out to do in the first place.  Re-read your question and biological rationale.  Do your results allow you to answer the question you posed in light of your biological rationale? A second reading of your BR after examining your data will often solve much of the confusion you may be experiencing.  Be sure to discuss your results thoroughly with your research team. They may have some insight, intriguing literature for comparison, or thoughts about the data that could benefit your interpretation.

Other things you can do:

• Take a look at the example of good discussions on the next pages.
• Make a conceptual diagram for yourself or with your team. This is especially useful for seeing new connections, structuring ideas, and finding interactions at multiple levels.
• Explain the experiment and its significance to a friend who knows nothing about it. If you understand the full content, context, results and relevance of your experiment, you should be able to explain what was done and what it means. This should help provide some organization to your paper.

How will discussions be evaluated ? To see our expectations for your Discussion, see the Biocore Research Paper Rubric in this Writing Manual.

Example of Good Discussion

Adapted from a paper by Jeremiah Wilke, Biocore 382, Fall 2003 Practice Paper entitled  “Queen Anne’s Lace ( Daucus carota ) Species Frequency Suggests Rototilling as Most Effective method for Control of Invasive Weeds in Prairie Restoration Projects

The results suggest that rototilling is the most effective method as mulching and mowing yielded frequency values approximately 5 fold greater. The greater effectiveness of rototilling over the other methods coincides with previous knowledge of Queen Anne’s lace as it is known to favor habitats in no-till fields (Rose and Sheaffer, 2003) and re-sprout stems even after being cut (Biocore 382, class 2001, unpublished data) . (setting up logical argument: referring back to biological rationale and comparing findings with the literature) . The frequency means suggest mowing to be slightly more effective than mulching; however, the distribution of the frequencies indicates little difference as the methods share common values. (Data interpretation- part of logical argument; Add re-statement of hypothesis and clearly state whether it was supported or rejected based on data interpretation)

Through rototilling seems to be the most efficacious for Queen Anne’s lace, several factors prevent us from making a definitive conclusion, most notably a small sample size. (Evaluating the validity and reliability of data) Frequency calculations can suggest patterns in the treatment, but they give no sense of the species density (number of a give species per quadrat). Examinations of the species frequency of Queen Anne’s lace in a control would also allow us to be more conclusive by gaining a sense of the improvement the methods made over untreated plots. (evaluating experimental design) Beyond our inability to decisively say which treatment is the most effective for Queen Anne’s lace, further work by the University of Wisconsin-Madison Biocore class of 2001 suggests we cannot generalize to other non-native species (Batzli, 2003). In their research, none of the methods demonstrated an appreciably greater capacity for weed control when tested on a variety of species. (discussion of other data makes our interpretation and argument more convincing) Species density calculations, measurements against a control, and the effectiveness of treatments on the other invasive plants therefore all necessitate future research. Mixing treatments has also been proposed (Batzli, 2003), while engineering novel methods deserves further study. (next steps)

(Final conclusion and brief discussion of implications of this research would help here)

Example of a Good Discussion that enumerates assumptions and how violating assumptions changes conclusions

Adapted from a poster by Beth Gausden, Katie Gielissen, Emily Gurnee, Jordan Mollet, and Carley Zeal, Biocore 384, Spring 2006

Addition of colchicines to MATa S. cerevisiae in vivo does not inhibit budding in the absence of α-factor but reduces shmooing and β-gal activity in response to α-factor

  The results in Fig. 2 do not support our hypothesis (rejection of original hypothesis) that yeast exposed to colchicine in the absence of α-factor show a drastic decline in the incidence of budding as compared to controls.  Our original hypothesis was based on the assumption that inhibition of mitotic division would prevent budding.  (clear statement of key assumption in biological rationale) Although nuclear division is mediated by microtubules, pinching action and subsequent cytokinesis (budding) is controlled by actin filaments1.  The tubulin-colchicine complex inhibits karygomy; however, bud formation can occur independently of nuclear division.1  Budding was still observed microscopically after three hours of incubation with colchicine (Fig. 2)- approximately two generations.  These results indicate that bud formation was not inhibited by colchicine; (summary of how results do not support biological assumption) however, later generations incubated in colchicine may show complete cessation of budding as a result of aneuploidy, an irregular number of chromosomes.1  This occurs when a yeast cell undergoes successful cytokinesis but unsuccessful karyogamy; if this process is continuous or prolonged, cells will be unable to bud.

The results in Fig. 1 and Fig. 2 do not support our hypothesis that colchicine does not affect shmooing or the transcription of mating genes.  We expected no change in the incidence of mating gene transcription as reported by the β-gal assay and percent of shmooing yeast in the yeast treated with colchicine compared to untreated yeast.  The β-gal assay, Fig. 1, indicates a large decrease occurred in the transcription of mating genes in the presence of colchicine.  Similarly, we observed a lower percentage of shmooing cells in the presence of colchicine.  If nuclear division were inhibited by colchicine, then the portion of cells experiencing aneuploidy would be unable to respond to α-factor by shmooing or transcribing mating genes.

Our results suggest that colchicine does not inhibit bud formation (in the absence of α-factor) after 3 hours.  We also observed decreased shmooing as well as β-galactosidase activity in yeast cells treated with colchicine and α-factor.  The consistency of our results provides reasonable confidence in the methods.  In future studies, longer incubation times, differing concentrations of colchicine, and chromosome and microtubule staining could be used to investigate the mechanism more thoroughly.

Adapted from a paper by Beth Theusch, Biocore 384, Spring 2003 Inorganic Phosphate Competitively Inhibits Alkaline Phosphatase-Catalyzed Hydrolysis of p-Nitrophenylphosphate

We hypothesized that inorganic phosphate (Pi) would act as a competitive inhibitor of the alkaline phosphatase-catalyzed pNPP hydrolysis reaction.   Our data support this hypothesis.  (re-statement of hypothesis and whether it was supported or rejected)   As expected, we found that addition of inorganic phosphate increased the Km of the alkaline phosphatase-catalyzed pNPP hydrolysis reaction while the Vmax remained relatively unchanged. (setting up logical argument)          After the addition of a concentration of Pi inhibitor approximately equal to the uninhibited Km substrate concentration, the apparent Km became 6-7 times as large (from 0.038 mM to 0.253 mM) as the uninhibited Km.  Therefore, pNPP substrate molecules had to be almost 7 times as numerous as inhibitor molecules to access alkaline phosphatase’s active site and produce product equivalent to an initial uninhibited reaction velocity of 1/2 Vmax.  These data indicate that Pi is quite an effective competitive inhibitor.  One reason for its effectiveness as an inhibitor could be that the molecular weight (MW) of inorganic phosphate is about 96 g/mol, while the MW of pNPP, with its bulky nitrophenyl group, is almost 217 g/mol.  Temperature is a measure of average molecular kinetic energy and is proportional to mv2.  This means that lighter molecules have to move faster than heavy ones at 37oC in order to have the same kinetic energy as the large molecules.  Molecules that move faster have more collisions, so it is likely that each Pi molecule had a greater chance of colliding with the alkaline phosphatase (AP) active site than did each pNPP substrate molecule during our experiment.  (constructing new knowledge: references would help a lot here to show that the differences in molecular weight mentioned could significantly change kinetic energy)      In addition, AP may have had a greater affinity for Pi than it did for the pNPP substrate, since alkaline phosphatases have a high affinity for inorganic phosphate (McComb et al ., 1979).  The bulky phenyl group on pNPP may have sterically hindered the hydrolysis reaction more than the hydrogen on Pi, depending on the specific geometry of the active site.   As we mentioned previously, AP generally hydrolyzes Pi at a slower rate than it hydrolyzes phosphomonoesters (Schwartz, 1963), and so it may be that Pi  occupies the AP active site longer per hydrolysis and thus excludes available pNPP from subsequently binding. (constructing new knowledge: referring back to biological rationale and comparing findings with the literature)

At first glance, it might appear that some of the increase in apparent Km could be attributed to a slight change in pH, since the Km value is pH dependent.  Dibasic Pi can act as a base by adding a proton and becoming h1PO4- and as an acid by losing a proton and forming PO43-, but phosphate is predominantly the dianion at a pH of 8.6.  Since the pH of the 0.05 mM Na2HPO4 salt solution was 7.7, which is close to the targeted value of 8.6, it is a reasonable to assume that the buffer counteracted any fluctuations in pH and essentially kept the pH constant. (evaluating experimental design)

Although the Vmax did not change dramatically between uninhibited and inhibited reactions, there was some difference between the uninhibited value of 0.056 umol/min and the inhibited value of 0.070 umol/min.  Since Vmax did not decrease, it was clear that Pi did not act as a noncompetitive inhibitor.  Since Vmax increases in the presence of an activator, it is possible that slight changes in ionic strength resulting from the addition of the salt could have activated AP somewhat.  However, previous studies at a pH of 10 have shown that the activities of mammalian alkaline phosphatases are either unaffected or diminished by an increase in ionic strength.  Specifically, calf intestinal AP experienced no change in activity following the addition of 1M NaCl, a much higher concentration than the Na+ that we introduced in our experiment.  In other systems, NaCl addition at a pH of 9.0, close to the 8.6 we used in our experiment, had little effect on maximum velocity and actually inhibited it at low substrate concentrations (McComb et al ., 1979).  Since other variables in the experiment were held constant, the differences in Vmax values could simply be due to experimental error. (evaluating data reliability & experimental design)

The Ki value of 8.78 uM obtained from this study was comparable to but slightly greater than literature values for the Ki of E. coli AP.  The values of 1 uM (O’Brien and Herschlag, 2001) and 0.6 uM (McComb et al ., 1979) for Pi inhibition of E. coli AP were both obtained at a pH of 8.0 and temperature of 25oC, while we used a pH of 8.6, a temperature of 37oC, and bovine intestinal AP in our study.  Just like Km values, Ki values are pH dependent.  It is generally recognized that competitive inhibitors of AP are more effective at lower pHs (McComb et al ., 1979).  The pH difference alone could probably explain why our Ki was slightly larger and our inhibitor was slightly less effective than in the E. coli studies.  In addition, bovine intestinal AP has a structure that is somewhat different from E. coli AP, so it is reasonable that the kinetics of the two enzymes could differ slightly.  Some studies in rats have shown that only 1/10 as much Pi is needed to inhibit intestinal AP as compared to the amount that is needed to inhibit AP in other rat tissues (McComb et al ., 1979).  (evaluating data reliability & experimental design)  Perhaps there are lower Pi concentrations in intestinal cells as compared to cells in other tissues.  It would be interesting to see if this is true for bovine and other mammalian AP as well. (New questions/Future Studies)

The inhibition of AP by Pi, the product of AP catalyzed hydrolysis reactions, is a substrate-level regulation mechanism (Becker, Kleinsmith, and Hardin, 2003).  This allows the AP enzyme to be responsive to product concentrations, so it is not always functioning at its maximum rate.  It is not in the best interest of the cell to convert all phosphomonoesters into Pi and an alcohol at once, and the competitive inhibition by Pi helps to prevent this.  This is precisely why initial reaction velocities are used when studying enzyme kinetics; if products are allowed to accumulate, they are likely to have an inhibitory effect on the enzyme. (implications of results, referring back to biological rationale)

Overall, the results of this study indicate that Pi is indeed a competitive inhibitor of bovine intestinal AP, as we had hypothesized.  Specifically, we found that the Km value increased from 0.038 mM to 0.253 mM while Vmax  remained relatively constant. We also found that our Ki value of 8.78 uM was reasonably similar to that reported previously for this particular enzyme and inhibitor. (final conclusion) 

Parenthetical Citations Within Text

• Cite all information that you use from published or unpublished sources in the body of your paper and provide full citations in the Literature Cited section at end of the paper.
• Parenthetical author-date format within a sentence or at the end of a block of text. Provide the last name of the author(s) and the date the work was published, both enclosed by parentheses. Example: Global warming is a looming threat to biodiversity (Peters and Lovejoy 1992).
• More than one source , list them in chronological order: e.g. (Jones 1992; Smith and Jacobs 1993; Torrez 1995). If a work has more than two authors, you may list the first followed by et al. (latin for “and others”) and the date: (Jones et al. 1995).  However, the names of all of the authors must be included in the list of citations at the end of the paper.
• Unpublished information: If you cannot find a published citation you can site personal communication in the body of your text – NOT in the literature cited. The format for unpublished information or data communication to you by a colleague is the source followed by “personal communication” or “unpublished data”: e.g. (Maria Rodriguez, personal communication 2002; Biocore 382 class, unpublished data). ***Use these sparingly as sources usually are not formal and cannot be verified easily. DO NOT base the major foundation of your study on personal communication unless the information gained is unique and not found elsewhere.

List all works cited in the text – and no others – alphabetically in the References section at the end of your paper.  The specific format used for references varies depending on each journal’s conventions, web-site format and the type of source to which you are referring.  We would like you to use the format demonstrated below which follows the Name-Year system . Each reference should include the names of all the authors, the date the article or book was published and/or the date the website was accessed and its title.  Regardless of the exact format used, make sure that you are consistent!

Here are some examples to follow:

Format as follows :

Author(s). year of publication. Title of the article (with only the first word capitalized). title of journal plus volume (issue): Inclusive page numbers.

One author example

Vitousek, P.M. 1994. Beyond global warming: ecology and global change. Ecology 75: 1861-1876.

Multiple author example

Post, W.M., Emanuel, W.R., Zinke, P.J., and Stangenberger, A.G. 1982. Soil carbon pools and world life zones. Nature 298: 156-159.

Internet Sources

A full discussion of number and types of internet resources is beyond the scope of this manual.

However, the following is a general guide for most articles that are published on the internet. As with all resources, especially those found on the internet, you must be wary of the source and its validity. If it doesn’t have an author or publication/ posting date BEWARE!

Format as follows :

Author(s). Year of publication. Title of the work. Title of the complete work or website or on-line journal plus volume (issue) if available/ applicable. Website URL or address (except for online journal or personal email). Date you accessed the web page.

Carbon, J.J. Physiology data. Personal email (7 July 2010).

Listserv or RSS feed newslist:

Blystone, R.V. 1994. Setting up a digital classroom and other stuff. [email protected] (accessed May 10, 1996).

World Wide Web: Basic form is: Author. Date. Title. URL (Access date)

Waterman, M., Stanley, E., Soderberg, P., and Jungck, J.R. 1999 Kingdoms entangled: molecules, malaria, and maise. BioQUEST Curriculum Consortium. http://bioquest.org/case.html (accessed  April 12, 2012)

Macreal, H. 2001. Large Fish, Small Pond. http://www.bigfish.org/articles (accessed April 20, 2001)

Splice, G. 2000. Mutations are the Ultimate form of Variation. University Press Weekly vol 22. Electric Library. http://www.elibrary.com/ (accessed October 17, 2011).

*Note: Do not write out a website address (URL) as a parenthetic citation within the text of your paper—instead include the author and year of publication (e.g. Macreal 2001), just as you do with all other publications. Whenever possible, list the author. If you can’t find an author, list the organization that provided the information. If you can’t find the name of the organization, question the quality of your source.

Biocore Lab Manual

You will be citing one of your Biocore lab manuals in many of your research papers.  To do this, look at the lab manual chapter to find the author(s) you wish to cite and the example format below.  NOTE: This is an example for the Biocore Prairie chapter of the Biocore 382 lab manual.

Book Citations

Format as follows:

First author’s last name, First initials, subsequent authors’ name separated by commas, year of publication, title of book (italicized, with only the first word capitalized), edition number (if it is not the first edition), the publisher, the city of publication, and the state (omit the state for well known cities like New York).

Kuhn, T.S. 1962. The structure of scientific revolutions. University of Chicago Press, Chicago.

Purves, W.K., Sadava, D., Orians, G.H., and Heller, H.C. 2001. Life, the science of biology, 6th ed. Sinauer, Sunderland, MA.

Chapter in a Book

Naes, A. 1986. Intrinsic value: will the defenders of nature please rise? In Soulé, M.E., editor. Conservation biology: the science of scarcity and diversity. Sinauer Associates, Sunderland, MA. pp. 504-515.

Process of Science Companion: Science Communication Copyright © 2017 by University of Wisconsin-Madison Biology Core Curriculum (Biocore) is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License , except where otherwise noted.

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• Research paper

How to Create a Structured Research Paper Outline | Example

Published on August 7, 2022 by Courtney Gahan . Revised on August 15, 2023.

A research paper outline is a useful tool to aid in the writing process , providing a structure to follow with all information to be included in the paper clearly organized.

A quality outline can make writing your research paper more efficient by helping to:

• Organize your thoughts
• Understand the flow of information and how ideas are related
• Ensure nothing is forgotten

A research paper outline can also give your teacher an early idea of the final product.

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Table of contents

Research paper outline example, how to write a research paper outline, formatting your research paper outline, language in research paper outlines.

• Definition of measles
• Rise in cases in recent years in places the disease was previously eliminated or had very low rates of infection
• Figures: Number of cases per year on average, number in recent years. Relate to immunization
• Symptoms and timeframes of disease
• Risk of fatality, including statistics
• How measles is spread
• Immunization procedures in different regions
• Different regions, focusing on the arguments from those against immunization
• Immunization figures in affected regions
• High number of cases in non-immunizing regions
• Illnesses that can result from measles virus
• Fatal cases of other illnesses after patient contracted measles
• Summary of arguments of different groups
• Summary of figures and relationship with recent immunization debate
• Which side of the argument appears to be correct?

Scribbr Citation Checker New

The AI-powered Citation Checker helps you avoid common mistakes such as:

• Missing commas and periods
• Incorrect usage of “et al.”
• Ampersands (&) in narrative citations
• Missing reference entries

Follow these steps to start your research paper outline:

• Decide on the subject of the paper
• Write down all the ideas you want to include or discuss
• Organize related ideas into sub-groups
• Arrange your ideas into a hierarchy: What should the reader learn first? What is most important? Which idea will help end your paper most effectively?
• Create headings and subheadings that are effective
• Format the outline in either alphanumeric, full-sentence or decimal format

There are three different kinds of research paper outline: alphanumeric, full-sentence and decimal outlines. The differences relate to formatting and style of writing.

• Alphanumeric
• Full-sentence

An alphanumeric outline is most commonly used. It uses Roman numerals, capitalized letters, arabic numerals, lowercase letters to organize the flow of information. Text is written with short notes rather than full sentences.

• Sub-point of sub-point 1

Essentially the same as the alphanumeric outline, but with the text written in full sentences rather than short points.

• Additional sub-point to conclude discussion of point of evidence introduced in point A

A decimal outline is similar in format to the alphanumeric outline, but with a different numbering system: 1, 1.1, 1.2, etc. Text is written as short notes rather than full sentences.

• 1.1.1 Sub-point of first point
• 1.1.2 Sub-point of first point
• 1.2 Second point

To write an effective research paper outline, it is important to pay attention to language. This is especially important if it is one you will show to your teacher or be assessed on.

There are four main considerations: parallelism, coordination, subordination and division.

Parallelism: Be consistent with grammatical form

Parallel structure or parallelism is the repetition of a particular grammatical form within a sentence, or in this case, between points and sub-points. This simply means that if the first point is a verb , the sub-point should also be a verb.

Example of parallelism:

• Include different regions, focusing on the different arguments from those against immunization

Coordination: Be aware of each point’s weight

Your chosen subheadings should hold the same significance as each other, as should all first sub-points, secondary sub-points, and so on.

Example of coordination:

• Include immunization figures in affected regions
• Illnesses that can result from the measles virus

Subordination: Work from general to specific

Subordination refers to the separation of general points from specific. Your main headings should be quite general, and each level of sub-point should become more specific.

Example of subordination:

Division: break information into sub-points.

Your headings should be divided into two or more subsections. There is no limit to how many subsections you can include under each heading, but keep in mind that the information will be structured into a paragraph during the writing stage, so you should not go overboard with the number of sub-points.

Ready to start writing or looking for guidance on a different step in the process? Read our step-by-step guide on how to write a research paper .

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• USC Libraries
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Organizing Your Social Sciences Research Paper

• 9. The Conclusion
• Purpose of Guide
• Design Flaws to Avoid
• Independent and Dependent Variables
• Glossary of Research Terms
• Reading Research Effectively
• Narrowing a Topic Idea
• Broadening a Topic Idea
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The conclusion is intended to help the reader understand why your research should matter to them after they have finished reading the paper. A conclusion is not merely a summary of the main topics covered or a re-statement of your research problem, but a synthesis of key points derived from the findings of your study and, if applicable based on your analysis, explain new areas for future research. For most college-level research papers, two or three well-developed paragraphs is sufficient for a conclusion, although in some cases, more paragraphs may be required in describing the key findings and highlighting their significance.

Conclusions. The Writing Center. University of North Carolina; Conclusions. The Writing Lab and The OWL. Purdue University.

Importance of a Good Conclusion

A well-written conclusion provides important opportunities to demonstrate to the reader your understanding of the research problem. These include:

• Presenting the last word on the issues you raised in your paper . Just as the introduction gives a first impression to your reader, the conclusion offers a chance to leave a lasting impression. Do this, for example, by highlighting key findings in your analysis that advance new understanding about the research problem, that are unusual or unexpected, or that have important implications applied to practice.
• Summarizing your thoughts and conveying the larger significance of your study . The conclusion is an opportunity to succinctly re-emphasize  your answer to the "So What?" question by placing the study within the context of how your research advances past studies about the topic.
• Identifying how a gap in the literature has been addressed . The conclusion can be where you describe how a previously identified gap in the literature [first identified in your literature review section] has been addressed by your research and why this contribution is significant.
• Demonstrating the importance of your ideas . Don't be shy. The conclusion offers an opportunity to elaborate on the impact and significance of your findings. This is particularly important if your study approached examining the research problem from an unusual or innovative perspective.
• Introducing possible new or expanded ways of thinking about the research problem . This does not refer to introducing new information [which should be avoided], but to offer new insight and creative approaches for framing or contextualizing the research problem based on the results of your study.

Bunton, David. “The Structure of PhD Conclusion Chapters.” Journal of English for Academic Purposes 4 (July 2005): 207–224; Conclusions. The Writing Center. University of North Carolina; Kretchmer, Paul. Twelve Steps to Writing an Effective Conclusion. San Francisco Edit, 2003-2008; Conclusions. The Writing Lab and The OWL. Purdue University; Assan, Joseph. "Writing the Conclusion Chapter: The Good, the Bad and the Missing." Liverpool: Development Studies Association (2009): 1-8.

Structure and Writing Style

I.  General Rules

The general function of your paper's conclusion is to restate the main argument . It reminds the reader of your main argument(s) strengths and reiterates the most important evidence supporting those argument(s). Do this by clearly summarizing the context, background, and the necessity of examining the research problem in relation to an issue, controversy, or a gap found in the literature. However, make sure that your conclusion is not simply a repetitive summary of the findings. This reduces the impact of the argument(s) you have developed in your paper.

When writing the conclusion to your paper, follow these general rules:

• Present your conclusions in clear, concise language. Re-state the purpose of your study, then describe how your findings differ or support those of other studies and why [i.e., describe what were the unique, new, or crucial contributions your study made to the overall research about your topic].
• Do not simply reiterate your findings or the discussion of your results. Provide a synthesis of arguments presented in the paper to show how these converge to address the research problem and the overall objectives of your study.
• Indicate opportunities for future research if you haven't already done so in the discussion section of your paper. Highlighting the need for further research provides the reader with evidence that you have an in-depth awareness of the research problem but that further analysis should take place beyond the scope of your investigation.

Consider the following points to help ensure your conclusion is presented well:

• If the argument or purpose of your paper is complex, you may need to summarize the argument for your reader.
• If, prior to your conclusion, you have not yet explained the significance of your findings or if you are proceeding inductively, use the end of your paper to describe your main points and explain their significance.
• Move from a detailed to a general level of consideration that returns the topic to the context provided by the introduction or within a new context that emerges from the data [this is opposite of the introduction, which begins with general discussion of the context and ends with a detailed description of the research problem]. 

The conclusion also provides a place for you to persuasively and succinctly restate the research problem, given that the reader has now been presented with all the information about the topic . Depending on the discipline you are writing in, the concluding paragraph may contain your reflections on the evidence presented. However, the nature of being introspective about the research you have conducted will depend on the topic and whether your professor wants you to express your observations in this way. If asked to think introspectively about the topic, do not delve into idle speculation. Being introspective means looking within yourself as an author to try and understand an issue more deeply, not to guess at possible outcomes or make up scenarios not supported by the evidence.

II.  Developing a Compelling Conclusion

Although an effective conclusion needs to be clear and succinct, it does not need to be written passively or lack a compelling narrative. Strategies to help you move beyond merely summarizing the key points of your research paper may include any of the following:

• If your paper addresses a critical, contemporary problem, warn readers of the possible consequences of not attending to the problem proactively based on the evidence presented in your study.
• Recommend a specific course or courses of action that, if adopted, could address a specific problem in practice or in the development of new knowledge leading to positive change.
• Cite a relevant quotation or expert opinion already noted in your paper in order to lend authority and support to the conclusion(s) you have reached [a good source would be from a source cited in your literature review].
• Explain the consequences of your research in a way that elicits action or demonstrates urgency in seeking change.
• Restate a key statistic, fact, or visual image to emphasize the most important finding of your paper.
• If your discipline encourages personal reflection, illustrate your concluding point by drawing from your own life experiences.
• Return to an anecdote, an example, or a quotation that you presented in your introduction, but add further insight derived from the findings of your study; use your interpretation of results from your study to recast it in new or important ways.
• Provide a "take-home" message in the form of a succinct, declarative statement that you want the reader to remember about your study.

III. Problems to Avoid

Failure to be concise Your conclusion section should be concise and to the point. Conclusions that are too lengthy often have unnecessary information in them. The conclusion is not the place for details about your methodology or results. Although you should give a summary of what was learned from your research, this summary should be relatively brief, since the emphasis in the conclusion is on the implications, evaluations, insights, and other forms of analysis that you make. Strategies for writing concisely can be found here .

Failure to comment on larger, more significant issues In the introduction, your task was to move from the general [topic studied within the field of study] to the specific [the research problem]. However, in the conclusion, your task is to move the discussion from specific [your research problem] back to a general discussion framed around the implications and significance of your findings [i.e., how your research contributes new understanding or fills an important gap in the literature]. In short, the conclusion is where you should place your research within a larger context [visualize the structure of your paper as an hourglass--start with a broad introduction and review of the literature, move to the specific method of analysis and the discussion, conclude with a broad summary of the study's implications and significance].

Failure to reveal problems and negative results Negative aspects of the research process should never be ignored. These are problems, deficiencies, or challenges encountered during your study. They should be summarized as a way of qualifying your overall conclusions. If you encountered negative or unintended results [i.e., findings that are validated outside the research context in which they were generated], you must report them in the results section and discuss their implications in the discussion section of your paper. In the conclusion, use negative or surprising results as an opportunity to explain their possible significance and/or how they may form the basis for future research.

Failure to provide a clear summary of what was learned In order to discuss how your research fits within your field of study [and possibly the world at large], you need to summarize briefly and succinctly how it contributes to new knowledge or a new understanding about the research problem. This element of your conclusion may be only a few sentences long, but it often represents the key takeaway for your reader.

Failure to match the objectives of your research Often research objectives in the social and behavioral sciences change while the research is being carried out due to unforeseen factors or unanticipated variables. This is not a problem unless you forget to go back and refine the original objectives in your introduction. As these changes emerge they must be documented so that they accurately reflect what you were trying to accomplish in your research [not what you thought you might accomplish when you began].

Resist the urge to apologize If you've immersed yourself in studying the research problem, you presumably should know a good deal about it [perhaps even more than your professor!]. Nevertheless, by the time you have finished writing, you may be having some doubts about what you have produced. Repress those doubts! Don't undermine your authority as a researcher by saying something like, "This is just one approach to examining this problem; there may be other, much better approaches that...." The overall tone of your conclusion should convey confidence to the reader concerning the validity and realiability of your research.

Assan, Joseph. "Writing the Conclusion Chapter: The Good, the Bad and the Missing." Liverpool: Development Studies Association (2009): 1-8; Concluding Paragraphs. College Writing Center at Meramec. St. Louis Community College; Conclusions. The Writing Center. University of North Carolina; Conclusions. The Writing Lab and The OWL. Purdue University; Freedman, Leora  and Jerry Plotnick. Introductions and Conclusions. The Lab Report. University College Writing Centre. University of Toronto; Leibensperger, Summer. Draft Your Conclusion. Academic Center, the University of Houston-Victoria, 2003; Make Your Last Words Count. The Writer’s Handbook. Writing Center. University of Wisconsin Madison; Miquel, Fuster-Marquez and Carmen Gregori-Signes. “Chapter Six: ‘Last but Not Least:’ Writing the Conclusion of Your Paper.” In Writing an Applied Linguistics Thesis or Dissertation: A Guide to Presenting Empirical Research . John Bitchener, editor. (Basingstoke,UK: Palgrave Macmillan, 2010), pp. 93-105; Tips for Writing a Good Conclusion. Writing@CSU. Colorado State University; Kretchmer, Paul. Twelve Steps to Writing an Effective Conclusion. San Francisco Edit, 2003-2008; Writing Conclusions. Writing Tutorial Services, Center for Innovative Teaching and Learning. Indiana University; Writing: Considering Structure and Organization. Institute for Writing Rhetoric. Dartmouth College.

Writing Tip

Don't Belabor the Obvious!

Avoid phrases like "in conclusion...," "in summary...," or "in closing...." These phrases can be useful, even welcome, in oral presentations. But readers can see by the tell-tale section heading and number of pages remaining that they are reaching the end of your paper. You'll irritate your readers if you belabor the obvious.

Assan, Joseph. "Writing the Conclusion Chapter: The Good, the Bad and the Missing." Liverpool: Development Studies Association (2009): 1-8.

Another Writing Tip

New Insight, Not New Information!

Don't surprise the reader with new information in your conclusion that was never referenced anywhere else in the paper. This is why the conclusion rarely has citations to sources that haven't been referenced elsewhere in your paper. If you have new information to present, add it to the discussion or other appropriate section of the paper. Note that, although no new information is introduced, the conclusion, along with the discussion section, is where you offer your most "original" contributions in the paper; the conclusion is where you describe the value of your research, demonstrate that you understand the material that you have presented, and position your findings within the larger context of scholarship on the topic, including describing how your research contributes new insights to that scholarship.

Assan, Joseph. "Writing the Conclusion Chapter: The Good, the Bad and the Missing." Liverpool: Development Studies Association (2009): 1-8; Conclusions. The Writing Center. University of North Carolina.

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