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

John Greene SocietyUCSF Short Term Summer

Fellowship Workshop

February 2, 2010

John Greene SocietyUCSF Short Term Summer

Fellowship Workshop

February 2, 2010

Presenters:Presenters:

Important Deadlines: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??.

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??.

Your Proposal must include:

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

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

Brief Overview of the Research Protocol:

Brief Overview of the Research Protocol:

Formal Title PageSpecific AimsBackground and SignificanceMaterials and MethodsLiterature CitedResource Information (optional)Other Support (optional)

Formal Title PageSpecific AimsBackground and SignificanceMaterials and MethodsLiterature CitedResource Information (optional)Other Support (optional)

If Your Project is Chosen…..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

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

The Research ProtocolThe Research Protocol

Formal Title PageSpecific Aims Background and SignificanceMaterials and MethodsLiterature CitedResource InformationOther Support





Title Page, Hypothesis, Specific Aims, Project

Objectives

Title Page, Hypothesis, Specific Aims, Project

Objectives

Title PageTitle Page

Title of projectStudent name and email addressMentor(s) name and email address

Title of projectStudent name and email addressMentor(s) name and email address

Objectives, Specific Aims, and Hypothesis

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

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

Hypothesis and Specific Aims

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

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

Project ObjectivesProject ObjectivesObjectives 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).”

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).”




Background and Significance

Background and Significance

PurposePurpose

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

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

StrategyStrategy

Make a story with a beginning, middle, and an end

Make it cohesiveGive logical explanation of its

importanceDefend your proposal using

references of manuscripts published in your field of topic.

Make a story with a beginning, middle, and an end

Make it cohesiveGive logical explanation of its

importanceDefend your proposal using

references of manuscripts published in your field of topic.

Steps to TakeSteps to Take

Search Pubmed for “REVIEW” manuscriptsThey 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 paragraphsDefine and describe your topicGive description of current research that is

pertinent to your studyExplain what questions are left unanswered and

how your proposal will answer those questions.

Search Pubmed for “REVIEW” manuscriptsThey 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 paragraphsDefine and describe your topicGive description of current research that is

pertinent to your studyExplain what questions are left unanswered and

how your proposal will answer those questions.




Materials and MethodsMaterials and Methods

OverviewOverview

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

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

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 AimsSpecific AimsI. Quantify the ability of commercially available carbon dioxide lasers to I. Quantify the ability of commercially available carbon dioxide lasers to ablate dental enamel.ablate dental enamel.

******Materials and MethodsMaterials and MethodsI. Quantification of enamel ablation by carbon dioxide lasers.I. Quantification of enamel ablation by carbon dioxide lasers.[Describe the lasers, the samples, the experimental design, and data [Describe the lasers, the samples, the experimental design, and data collection & analysis]collection & analysis]

Write in sections that mirror your “Specific Aims”:For each “Aim,” there should be an

experiment that attempts to achieve it

Specific AimsSpecific AimsI. Quantify the ability of commercially available carbon dioxide lasers to I. Quantify the ability of commercially available carbon dioxide lasers to ablate dental enamel.ablate dental enamel.

******Materials and MethodsMaterials and MethodsI. Quantification of enamel ablation by carbon dioxide lasers.I. Quantification of enamel ablation by carbon dioxide lasers.[Describe the lasers, the samples, the experimental design, and data [Describe the lasers, the samples, the experimental design, and data collection & analysis]collection & analysis]



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.

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.



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.

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.

Committee on Human ResearchCommittee 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.

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.

Committee on Animal Research

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

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




Literature Cited, Resource Information, Other

Support, and Lab Safety for Researchers

Literature Cited, Resource Information, Other

Support, and Lab Safety for Researchers

Literature CitedLiterature Cited

Most common is the Uniform Requirements StyleFormat used for articles submitted to

biomedical journals http://www.nlm.nih.gov/bsd/

uniform_requirements.html

Most common is the Uniform Requirements StyleFormat used for articles submitted to

biomedical journals http://www.nlm.nih.gov/bsd/

uniform_requirements.html

Other Resources (Optional)

Other Resources (Optional)

Provide information on facilities and equipment to be used for your project

Provide information on facilities and equipment to be used for your project

Other Support (Optional)Other Support (Optional)

List other people, labs, etc that will be helping or collaborating with you to complete this project.

List other people, labs, etc that will be helping or collaborating with you to complete this project.

Lab Safety for ResearchersLab Safety for Researchers

Required online learning module Basics of laboratory safety http://www.ehs.ucsf.edu/training/oeh

straining.asp

Request account – takes a few daysLogin and complete Print certificate as proof of

completion

Required online learning module Basics of laboratory safety http://www.ehs.ucsf.edu/training/oeh

straining.asp

Request account – takes a few daysLogin and complete Print certificate as proof of

completion

http://www.ehs.ucsf.edu/training/oehstraining.asp




How Fellowships Are Awarded

How Fellowships Are Awarded

Awarding of GrantsAwarding 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

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

Grant MoneyGrant Money

UCSF 2007 Award: 4 installments totaling $5193Allowance for expendable laboratory

supplies ($500 last year)

UCSF 2007 Award: 4 installments totaling $5193Allowance for expendable laboratory

supplies ($500 last year)

Getting the Grant: Helpful Hints

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

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

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

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