
Research Fundamentals for Ophthalmology Residents and Clinical Fellows Toolkit
This toolkit is a sharable curriculum on key topics of relevance to performing research in Ophthalmology and Vision Science. The content is compiled from publicly-available websites, YouTube, individual member departments and organizations (AAO, ARVO), and is targeted primarily at residents and clinical fellows.
A. Believing What You Read
Fundamental issues in scientific publishing – what to consider when performing research, submitting results for publication, and evaluating published works
- Can you believe what you read? (Van Kolfschooten, Nature, 2002)
- When to trust (and not to trust) peer reviewed science (Crossley, The Conversation, 2018)
B. Critically Evaluating the Literature
Best practices when critically reading published manuscripts - use of established checklists and norms, identifying strengths and weaknesses, credibility and inherent bias
- Critical analysis of clinical research articles: a guide for evaluation (Roever et al., Evidence Based Medicine and Practice, 2016)
- How to read a paper, critical review (University of Southampton, 2023)
- Cochrane Eyes and Vision: systematic reviews
- Critical evaluation of scientific articles (McMaster University, Demystifying Medicine Series, YouTube video, 7 mins, 2014)
- Critically Evaluating Research Literature (TedEd, YouTube Video, 10mins, 2013)
- How to identify a journal article as scholarly or popular (James Cook University Library, YouTube video, 4 mins, 2016) )
- How to analyze a scientific paper (Valerdi, University of Arizona, YouTube video, 13 mins, 2017)
A. Responsible Conduct of Research
Principles for the conduct, reporting, editing, and publication of scholarly work in peer-reviewed journals
- Recommendations for the Conduct, Reporting, Editing, and Publication of Scholarly Work in Medical Journals (International Committee of Medical Journal Editors, 2022
- On Being a Scientist: A Guide to Responsible Conduct in Research (National Academies, 2009)
- Introduction to the Responsible Conduct of Research (Steneck and Zinn, U.S. Department of Health and Human Services, 2007)
- Research Misconduct (US Dept. Health and Human Services, Office of Research Integrity)
- Responsible Conduct of Research Course listings (CITI Program)
- Responsible Conduct of Research: Topics and Case Studies (Cornell University, 2019)
- Responsible Conduct for Research (Schwiebert, University of Alabama at Birmingham, YouTube video, 2hrs, 2019)
- Responsible Conduct of Research Training (Montana State University, YouTube video, 2+hrs, 2010)
- Responsible Conduct of Research (North Carolina State University, YouTube video, 5 mins, 2019)
- Introduction to the Ethics and the Responsible Conduct of Research (Gannon, University of New Mexico, YouTube video, 8 mins, 2018)
B. Developing the Research Plan
Generating Research Questions
Stepwise approaches to understand the literature, identify unanswered questions and ascertain if questions can be answered in a practical way
- Writing Strong Research Questions | Criteria & Examples (McCombs, Scribbr, 2022)
- How to Write a Research Question (The Writing Center, George Mason University, 2022)
- Narrowing a Topic and Developing a Research Question (adapted from The Writing Center, George Mason University, 2018)
- How to Develop a Strong Research Question (Scribbr, YouTube video, 4 mins, 2020)
- Developing a research question (Steely Library Northern Kentucky University, YouTube video, 5 mins, 2014)
- Creating a good research question (Georgia State University, YouTube video, 6 mins, 2013)
Study Design
Understanding different study methodologies and differences between observational, experimental, qualitative, and systematic review studies; application in appropriate selection of study design for a research question
- Study designs in medicine (Süt, Balkan Medical Journal, 2014)
- Research study design (University at Buffalo, Department of Medicine website)
- Study Designs (Medical University of South Carolina, 2022)
- Introduction to Study Design (Howick, Center for Evidence-Based Medicine, University of Oxford Nuffield Department of Primary Care Health Sciences, 2014)
- Types of Clinical Study Designs (Georgia State University Library website, 2022)
Special Considerations for Population Health Research in Ophthalmology
Topics relevant to population health research
- LVPrasad/Wills/Jefferson lecture series videos N.B. Requires sign up for the Wills Knowledge Portal, open to the public
C. Execution of the Plan
IRB Survival Tactics
Principles of IRB organization, mission, review process; guidelines for protocol formulation, submission and interactions with IRB
- IRB Survival Handbook (University of Kentucky website, 2021)
- IRB Survival Tactics (Unsworth, University of Rochester Flaum Eye Institute lecture, 2021)
- IRB Survival Guide: Getting Approved (Furman, University of Houston Case Medical Center, 2014)
- Writing an IRB Protocol (Hamilton College 2021, YouTube video, 15 mins, 2021)
- How to Assemble an IRB Protocol Package (Sweetser, San Diego State University, YouTube video, 18 mins, 2019)
- Submitting a Research Protocol to the IRB: Tips for Success (panel from Ohio State University, YouTube video, 43 mins, 2017)
- Create and Submit an IRB Protocol (Yale University, YouTube video, 5 mins, 2017)
- IRB Survival Tactics (Unsworth, University of Rochester Flaum Eye Institute lecture, video, 54 mins, 2021)
Funding Your Research Ideas
Resources and approaches to identify appropriate funding sources and crafting a successful grant application
- Funding Research Ideas (Huxlin, University of Rochester Flaum Eye Institute Lecture, 2022)
- How Do I Find Funding For My Research? (Candid Learning.org, 2021)
- Where to Search for Funding (Science.org, 2021)
- How to Get Research Funded — 8 Types of Funding You Can Win (Roostervane.com, 2021)
- 100 Places to Find Funding For Your Research (Open Education Database.org, 2021)
- Secrets to writing a winning grant (Sohn, Nature, 2019)
- ARVO Funding Guide (ARVO.org, 2021)
- How Do I Get Funding? (American Chemical Society, YouTube video, 5 mins, 2018)
- Getting Research Grants (University of Ottawa, YouTube video, 1:14 hr, 2017)
- What You Need to Know About Getting Government Research Grants (Hall, Teaching academia.com, YouTube video, 6 mins, 2020)
- How to Write a Research Proposal Step by Step (Shomu’s Biology.com, YouTube video, 22 mins, 2018)
- Intro to Grant Funding Research: Foundation Directory Online (Vernon Area Public Library, YouTube video, 54 mins, 2021)
- Funding Research Ideas (Huxlin, University of Rochester Flaum Eye Institute Lecture, video, 1:13 hrs, 2022)
D. Data Analysis
Biostatistics: Research Methods in Ophthalmology
Understanding biostatistics, utilization of appropriate tools and interpretation of data to obtain clinically and statistically meaningful outcomes
- Biostatistical Education in Ophthalmology (Cox, Ophthalmology, 2004)
- Biostatistics 101: Perspective on Statistics in Ophthalmology (Hirabayashi et al., JOJ Ophthalmology, 2019)
- Ophthalmic Epidemiology and Biostatistics (Goldberg, Archives of Ophthalmology, 1988)
- Tutorial on Biostatistics: Statistical Analysis for Correlated Binary Eye Data (Ying et al., Ophthalmic Epidemiology, 2017)
- The Various Hats of [Collaborative] Statisticians (Johnson, University of Rochester Flaum Eye Institute Lecture, video, 57 mins, 2021)
- Statistical Methods in Ophthalmology: Unlocking the Black Box (Ostler, Moran CORE, Collection, YouTube video, 15 mins, 2018)
- Biostatistics for Non-Statisticians: Understanding Different Types of Analyses and When to Use Each (Usner, Statistics and Data Corporation Webinar, YouTube video, 62 mins, 2019)
- USMLE STEP 1 exam Biostatistics (Neil, YouTube 22-videos series, 2015+)
- Statistics: Basics-Epidemiology & Biostatistics (Lecturio Medical, USMLE Preparation, YouTube video, 20 mins, 2018)
Working with Big Data in Ophthalmology
Definition of big data; current examples of application in Ophthalmology; how to access, organize, and secure it; potential utilization in eye care in the future
- Big Data in Ophthalmology (Cheng et al., Asia Pacific Journal of Ophthalmology, 2020)
- Big Data in Ophthalmology (Benatti, Millenial Eye, 2019)
Artificial Intelligence (AI) in Ophthalmology
Definition of artificial intelligence; current examples of application in Ophthalmology, how it is used to build algorithms and understanding of ocular diseases
- Artificial intelligence and deep learning in ophthalmology (Ting et al., British Journal of Ophthalmology, 2019)
- Application of Artificial Intelligence in Ophthalmology (Du et al., International Journal of Ophthalmology, 2018)
- Big Data and Artificial Intelligence in Ophthalmology: Where Are We Now? (Lee et al., Ophthalmology Science, 2021)
- Artificial Intelligence in Ophthalmology in 2020: A Technology on the Cusp for Translation and Implementation (Gunasekeran and Wong, Asia Pacific Journal of Ophthalmology, 2020)
- Artificial Intelligence (Roach, EyeNet Magazine, 2017)
- Current and Future Use of Machine and Deep Learning Systems (Li et al., Cataract & Refractive Surgery Today Europe, 2021)
- AI papers in Ophthalmology Made Simple (Jeon et al., Eye, 2020)
- Machine Learning and AI in Ophthalmology (Habash, Glaucoma Today, 2019)
- Artificial Intelligence in Ophthalmology (Devgan, CataractCoach YouTube Video, 8 mins, 2020)
- Introduction to Artificial Intelligence (Keane, University College London Ophthalmology, YouTube video, 3 mins, 2021)
A. Principles of Good Research Presentations
Writing a Compelling Abstract
Principles of crafting a competitive conference abstract
- Important Tips for Writing an Effective Conference Abstract (Enago Academy, 2021)
- Writing Abstracts for Scientific Conferences (BioScience Writers, 2014)
Making and Presenting a Poster
Role of a poster presentation; principles for designing and presenting a communicative, succinct and effective poster
- Ten Simple Rules for a Good Poster Presentation (Erren and Bourne, PLoS Computational Biology, 2007)
- How to Create a Research Poster (NYU libraries guide, 2022)
- Tips for Presenting your Scientific Poster at a Conference (Neurowire/Scientifica, 2015)
- How to create a better research poster in less time (Morrison, YouTube video, 20 mins, 2019)
- How to Design a Poster Presentation (PosterPresentations, YouTube video, 3 mins, 2010)
- Making a Better Poster (American Journal Experts, YouTube video, 4 mins, 2016)
Composing and Giving a Talk
Guidelines for how to create a good PowerPoint presentation; how to prepare for delivering an engaging and effective oral presentation
- Ten Simple Rules for Making Good Oral Presentations (Bourne, PLoS Computational Biology, 2007)
- Oral Presentation Tips (Grand Valley State University Office of Undergraduate Research and Scholarship, 2016)
- How to Give a Great Research Talk (Peyton Jones, Microsoft Research, YouTube video, 59 mins, 2017)
- PPT Do’s and Don’ts for Public Speaking (Colenso, YouTube video, 2.5 mins, 2015)
- How to Give a Great Oral Presentation (Microbiology Society, YouTube video, 3 mins, 2016)
- Do’s and Don’ts in making presentations more effective (Daisery, YouTube video, 3 mins 2017)
B. Developing a Publishable Manuscript
Writing a Clinical Paper/Book Chapter
Information and guidelines on how to write and publish effective clinical articles and book chapters
- How to Write a World Class Medical Paper (Elsevier China)
- How to Write Your First Research Paper (Kallestinova, Yale Journal of Biology and Medicine, 2011)
- How to Write and Publish a Paper (Aldcroft, PPT presentation, BMJ Open, 2018)
- How to Write a Clinical Paper for Publication (Earnshaw, Surgery 2012)
- How to Write a Good Clinical Paper/Book Chapter (Aquavella, University of Rochester Flaum Eye Institute Lecture, video, 37 mins, 2021)
- How to Write and Publish a Medical Article (Schatz, Conferences On-line Allergy, YouTube video, 50 mins, 2020)
- How to Write a Medical Research Paper (Villar, Smith & Nephew Education and Evidence, YouTube video, 11 mins, 2016)
- Structure for Writing an Effective Clinical Review Article (Educational Hub, YouTube video, 9 mins, 2020)
Writing a Good Scientific Paper/Book Chapter
Information and guidelines on how to write and publish an effective scientific article
- 10 Simple Steps to Writing a Scientific Paper (Armani, SPIE the international society for Optics and Photonics, 2020)
- How to Write a Good Scientific Paper (Mack, SPIE, 2018)
- Scientific Writing Made Easy: A Step-by-Step Guide to Undergraduate Writing in the Biological Sciences (Turbek et al., Bulletin Ecological Society of America, 2016)
- 11 Steps to Structuring a Science Paper Editors Will Take Seriously (Borja, Elsevier Connect, 2014 – last updated 2021)
- How to Write a Good Scientific Paper (Woeller, University of Rochester Flaum Eye Institute lecture, video, 58 mins, 2021)
- How to Write a Scientific Paper (Global Health with Greg Martin, YouTube video, 9 mins, 2018)
- How to Write a Great Research Paper, and Get it Accepted by a Good Journal (Newman, Tel Aviv University lecture, YouTube video, 1:46 hour, 2020)
A. Clinician-Scientist Career Path
Information, resources, advice and reflections on the challenging career path of clinician-scientists
- The Clinician Scientist, a Distinct and Disappearing Entity (Somekh et al., European Paediatric Association, 2019)
- A Typical Path for a Physician-Scientist? (Engman, Science 2003)
- The Joys and Challenges of Being a Physician–Scientist (Ganesh, Nature, 2021)
- Career Paths for MD-PhD Graduates (AAMC.org, 2021)
- The Clinician-Scientist Track: An Approach Addressing Australia’s Need for a Pathway to Train its Future Clinical Academic Workforce (Eley, BMC Medical Education, 2018)
- Clinician-Scientist Career Path: an Ophthalmologist’s Perspective (Wozniak, University of Rochester Flaum Eye Institute lecture, video, 57 mins, 2022)
- Considerations for a Successful Physician Scientist Career Path (Barthold, Sidney Kimmel College of Thomas Jefferson University, YouTube video, 38 mins, 2015)
- Physician Scientist Career Path Panel Discussion (American Academy of Neurology, YouTube video, 57 mins, 2021)
- Deborah Cook - A Clinician-Scientist’s Journey: Career Reflections and Lessons Learned (Society of Critical Care Medicine lecture, YouTube video, 22 mins, 2021)
B. Industry Interactions and Intellectual Property
Information regarding intellectual property and fostering industry-university relationships
- Science-Based Interaction in the Process of Innovation: The Importance of Boundary-Crossing Between Systems (Kaufmann and Tödtlin, Research Policy, 2001)
- Science-Based Technologies: University–Industry Interactions in Four Fields (Meyer-Krahmer and Schmoch, Research Policy, 1998)
- Scientific Relations Between Academia and Industry: Building on a New Era of Interactions for the Benefit of Society (Committee on Freedom and Responsibility in the Conduct of Science and the International Council for Science, 2011)
- Crafting University-Industry Interactions: A Typology and Empirical Illustrations from Uppsala University, Sweden (Baraldi, Uppsala University, 2013
- Intellectual Property Law: A Primer for Scientists (Brown, Molecular Biotechnology, 2003)
- Intellectual Property and Scientific Research (McKeough, Australian Journal of Physiotherapy,1996)
- Teaching Scientists How To Protect Their Intellectual Property (Thompson, WVXU News podcast, 3 mins, 2020)
- Industry Interactions and Intellectual Property (Feldon, University of Rochester Flaum Eye Institute Lecture, video, 51 mins, 2022)
- Intellectual Property Agreement Fundamentals for Scientists, Engineers and Managers Workshop Preview (Migliorini, Society of Petroleum Engineers, YouTube video, 20 mins, 2021)
- One day symposium on Intellectual property/patent for Young Scientists (Indian National Young Academy of Science, YouTube video, 2.5 hrs, 2021)
- Intellectual Property & Commercialization Science (Memorial University of Newfoundland TTCO Webinar Series, YouTube video, 59 mins, 2021)
- Introduction to Intellectual Property (Muller, Crash Course, YouTube video, 10 mins, 2015)
C. Getting the Most Out of Professional Conferences
Guidance on what to expect, how to plan, and how to strategically participate in a conference to maximize the experience
- Getting the Most out of a Professional Conference (Wilcox, University of California at Berkeley, 2021)
- 6 Tips to Get the Most Out of a Conference (Academic Positions, 2019)
- How to Get the Most Out of Attending Conferences (Pain, Science Careers, 2017)
- The Art of Conferencing (Huxlin, University of Rochester Flaum Eye Institute lecture, 2022)
ARVO Learn (Member-only Access)
