John Greene Society UCSF Short Term Summer Fellowship Workshop February 2, 2010

1. John Greene SocietyUCSF Short Term SummerFellowship WorkshopFebruary 2, 2010 Presenters:

2. Important Deadlines: • Applications must be submitted to Roger Mraz in the Office of Graduate and Research Affairs (Box 0430, Room S-619A) by March 7, 2010. • You will be notified of the Committee decision by ?? TBA??.

3. Your Proposal must include: • Research protocol • Mentor support letter • Completion of the Laboratory Safety for Researchers online Training • Human Subjects: CHR approval and evidence of HIPAA training completion • Vertebrate Subjects: CAR approval and evidence of Laboratory Housing/Handling training completion • Optional: CV - previous research experience and merits

4. Brief Overview of the Research Protocol: • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information (optional) • Other Support (optional)

5. If Your Project is Chosen….. • You are committed to 40 hours per week for 12 weeks to the project • This means a 2 week break during your 14-week summer • Interact with your mentor from initiation to its completion on your project • Submit: • A written summary of your project by the end of summer • Abstract to be submitted for 2009 UCSF Research and Clinical Excellence Day • Present a poster or oral presentation of the results of their project at Research and Clinical Excellence Day

6. The Research Protocol • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information • Other Support

7. The Research Protocol • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information • Other Support

8. Title Page, Hypothesis, Specific Aims, Project Objectives

9. Title Page • Title of project • Student name and email address • Mentor(s) name and email address

10. Objectives, Specific Aims, and Hypothesis • List objectives and describe what the research is intended to accomplish • Write a specific hypothesis to be tested and specific aims of the research project

11. Hypothesis and Specific Aims • Example of a Specific Hypothesis • “The specific hypothesis behind the proposed research is that the staphylococcal accessory regulator (sar) is a major regulatory switch controlling expression of S. aureus virulence factors.” • Specific Aims • 1) Correlate the production of each sar transcript with the production of functional SarA • 2) Characterize the mechanism of sar-mediated regulation of the S. aureus collagen adhesion gene (can) • 3) Identify S aureus virulence factor genes under the direct control of SarA Reference: http://www.niaid.nih.gov/ncn/grants/app/aims.pdf

12. Project Objectives Objectives from UCSF Research Day Abstracts (2006) • Project relating to oral health assessment (Dr. L. Chung) • “To determine the prevalence of dental caries and oral health disparities in San Francisco kindergarten children, assess changes during a 5-year period, and compare findings to other surveys.” • Project relating to dental materials evaluation (P. Kim) • “To determine the effects of four different storage solutions on shear bond strength of two bonding agents to human dentin over 1-90 days.” • Project relating to protein • “To identify the role of the C-terminus of LRAP in binding onto the surface of the synthetic carbonated hydroxyapatite (CAP).”

13. The Research Protocol • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information • Other Support

14. Background and Significance

15. Purpose • This is where you sell the idea of your project to the committee. • Describe: • Studies that have been done in that particular field and how they are significant • How your study is different and how it will progress your field

16. Strategy • Make a story with a beginning, middle, and an end • Make it cohesive • Give logical explanation of its importance • Defend your proposal using references of manuscripts published in your field of topic.

17. Steps to Take • Search Pubmed for “REVIEW” manuscripts • They are easier to read and provide a composite of all information relating to your field • Use the manuscripts cited on the “Review” • Read the relevant manuscripts that are cited on the review and use them for the foundation of your proposal. • Organize your paragraphs • Define and describe your topic • Give description of current research that is pertinent to your study • Explain what questions are left unanswered and how your proposal will answer those questions.

18. The Research Protocol • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information • Other Support

19. Materials and Methods

20. Overview • This is your actual planned procedures and protocol. • Describe experiments you will perform, the tool or techniques you will use, and how you’ll analyze the data • The review committee wants to see that you have a well contrived, feasible plan • You don’t have to have everything planned out, but you do need to provide some detail

21. Materials and Methods - Tips • Write in sections that mirror your “Specific Aims”: • For each “Aim,” there should be an experiment that attempts to achieve it Specific Aims I. Quantify the ability of commercially available carbon dioxide lasers to ablate dental enamel. *** Materials and Methods I. Quantification of enamel ablation by carbon dioxide lasers. [Describe the lasers, the samples, the experimental design, and data collection & analysis]

22. Materials and Methods - Tips • Elaborate on your technique: Not Specific: Mass Spec will be used to identify the components of the sample. Be Specific: Mass spectrometry (MS) is an analytical technique that measures the mass-to-charge ratio of charged particles, generally those originating from a sample of interest. In time-of-flight mass spectrometry (TOFMS), ions are accelerated by an electric field of known strength. The velocity of the ion depends on the mass-to-charge ratio (m/z), while the time that it subsequently takes for the particle to reach a detector can be measured. This time will depend on the mass-to-charge ratio of the particle, which can be used to help identify components of the original sample.

23. Materials and Methods - Tips • Explain how you will analyze your data: Not Specific: Following data collection, the survival rates in each oral cancer treatment group will be calculated and compared with another. Be Specific: The estimated survival function, S^(t), will be computed for each of the two treatment modalities and compared by the log-rank test. In order for this test to have a power of b = 0.80, at an acceptable error rate of a < 0.05, we should aim to include [X] subjects in each of our groups.

24. Committee on Human Research • The first step in the CHR application process is for the investigator to determine whether a study requires CHR review: • If a study is being performed by UCSF faculty, staff, or students and • If the study involves living humans (including studying human biological specimens, medical records and/or private information; definition is not limited to interactions or interventions with humans) and • If the project is research (a systematic investigation designed to contribute to generalized knowledge, ie, will be shared outside UCSF or published) Then the study required CHR review. Before initiating, modifying, or extending any research project involving human subjects, principal investigators must submit an application to the Committee on Human Research for review and approval.

25. Committee on Animal Research • The university has established policies on the use of animal subjects to promote their humane care and use in research and instruction and to ensure institutional compliance with all applicable federal and state laws and regulations and University policies governing the use of animals. • Animals researches need proof of handling/housing training

26. The Research Protocol • Formal Title Page • Specific Aims • Background and Significance • Materials and Methods • Literature Cited • Resource Information • Other Support

27. Literature Cited, Resource Information, Other Support, and Lab Safety for Researchers

28. Literature Cited • Most common is the Uniform Requirements Style • Format used for articles submitted to biomedical journals • http://www.nlm.nih.gov/bsd/uniform_requirements.html

29. Other Resources (Optional) • Provide information on facilities and equipment to be used for your project

30. Other Support (Optional) • List other people, labs, etc that will be helping or collaborating with you to complete this project.

31. Lab Safety for Researchers • Required online learning module • Basics of laboratory safety • http://www.ehs.ucsf.edu/training/oehstraining.asp • Request account – takes a few days • Login and complete • Print certificate as proof of completion

32. How Fellowships Are Awarded

33. Awarding of Grants • At UCSF • “…creativity, originality, feasibility, careful preparation, and attention to detail in the experimental design. Factors such as the applicant's previous research experience in professional institutions, undergraduate scholastic record, and motivation will be considered.” • At AADR • Format: Public Health Service Grant Application Form PHS 398 • Evaluation criteria: testable hypothesis, suitability of methods and facilities, significance of problem, likelihood of success, clarity and style, student potential, experience of mentor, creativity/feasibility of the project, potential significance to oral health research

34. Grant Money • UCSF 2007 Award: • 4 installments totaling $5193 • Allowance for expendable laboratory supplies ($500 last year)

35. Getting the Grant: Helpful Hints • Good mentor • Concise • Well-written • Good title • Clear intent of research and solid justification of scientific potential or contribution/clinical application of the study • Edit, edit edit! • Make the project your own - become the expert and convey it