1. APPLICATION FOR FEDERAL ASSISTANCE 2. DATE SUBMITTED Applicant Identifier
SF 424 (R&R) 3. DATE RECEIVED BY STATE State Application Identifier
1. * TYPE OF SUBMISSION
❍ Pre-application ● Application 4. Federal Identifier
❍ Changed/Corrected Application GM064590
5. APPLICANT INFORMATION * Organizational DUNS:872612445
* Legal Name: Cornell University
Department: Office of Sponsored Programs Division:
* Street1: 373 Pine Tree Road Street2:
* City: Ithaca County: Tompkins * State: NY: New York
Province: * Country: USA: UNITED STATES * ZIP / Postal Code: 14850
Person to be contacted on matters involving this application
Prefix: * First Name: Middle Name: * Last Name: Suffix:
Roberta Truscello
* Phone Number: 607-255-2942 Fax Number: 607-255-5058 Email: rt78@cornell.edu
6. * EMPLOYER IDENTIFICATION NUMBER (EIN) or (TIN): 7. * TYPE OF APPLICANT
1150532082A4 O: Private Institution of Higher Education
8. * TYPE OF APPLICATION: ❍ New Other (Specify):
Small Business Organization Type
● Resubmission ❍ Renewal ❍ Continuation ❍ Revision
❍ Women Owned ❍ Socially and Economically Disadvantaged
If Revision, mark appropriate box(es). 9. * NAME OF FEDERAL AGENCY:
❍ A. Increase Award ❍ B. Decrease Award ❍ C. Increase Duration National Institutes of Health
❍ D. Decrease Duration ❍ E. Other (specify): 10. CATALOG OF FEDERAL DOMESTIC ASSISTANCE NUMBER:
TITLE:
* Is this application being submitted to other agencies? ❍ Yes ● No
What other Agencies?
11. * DESCRIPTIVE TITLE OF APPLICANT'S PROJECT:
Molecular Evolution of Drosophila Y Chromosome
12. * AREAS AFFECTED BY PROJECT (cities, counties, states, etc.)
All of the United States
13. PROPOSED PROJECT: 14. CONGRESSIONAL DISTRICTS OF:
* Start Date * Ending Date a. * Applicant b. * Project
04/01/2009 03/31/2014 NY-022 NY-022
15. PROJECT DIRECTOR/PRINCIPAL INVESTIGATOR CONTACT INFORMATION
Prefix: * First Name: Middle Name: * Last Name: Suffix:
Prof. Andrew G. Clark PhD
Position/Title: Professor * Organization Name: Cornell University
Department: Molecular Biology and Genetics Division: College of Arts and Sciences
* Street1: 225 Biotechnology Building Street2:
* City: Ithaca County: Tompkins * State: NY: New York
Province: * Country: USA: UNITED STATES * ZIP / Postal Code: 14853
* Phone Number: 607-255-0527 Fax Number: 607-255-6249 * Email: ac347@cornell.edu
Tracking Number: GRANT00486761 Funding Opportunity Number: PA-07-070 Received Date: 2008-07-03 12:09:27.000-04:00 Time OMB Number: 4040-0001
Expiration Date: 04/30/2008
Zone: GMT-5

2. SF 424 (R&R) APPLICATION FOR FEDERAL ASSISTANCE Page 2
16. ESTIMATED PROJECT FUNDING 17. * IS APPLICATION SUBJECT TO REVIEW BY STATE EXECUTIVE ORDER 12372 PRO-
CESS?
a. * Total Estimated Project Funding $1,729,083.00
a. YES ❍ THIS PREAPPLICATION/APPLICATION WAS MADE AVAILABLE TO THE
STATE EXECUTIVE ORDER 12372 PROCESS FOR REVIEW ON:
b. * Total Federal & Non-Federal Funds $1,729,083.00 DATE:
c. * Estimated Program Income $0.00 b. NO ● PROGRAM IS NOT COVERED BY E.O. 12372; OR
❍ PROGRAM HAS NOT BEEN SELECTED BY STATE FOR REVIEW
18. By signing this application, I certify (1) to the statements contained in the list of certifications* and (2) that the statements herein are true, complete
and accurate to the best of my knowledge. I also provide the required assurances * and agree to comply with any resulting terms if I accept an
award. I am aware that any false, fictitious, or fraudulent statements or claims may subject me to criminal, civil, or administrative penalties. (U.S.
Code, Title 18, Section 1001)
● * I agree
* The list of certifications and assurances, or an Internet site where you may obtain this list, is contained in the announcement or agency specific instructions.
19. Authorized Representative
Prefix: * First Name: Middle Name: * Last Name: Suffix:
Roberta Truscello
* Position/Title: Grant and Contract Officer * Organization Name: Cornell University
Department: Office of Sponsored Programs Division:
* Street1: 373 Pine Tree Road Street2:
* City: Ithaca County: Tompkins * State: NY: New York
Province: * Country: USA: UNITED STATES * ZIP / Postal Code: 14850
* Phone Number: 607-255-2942 Fax Number: 607-255-5058 * Email: rt78@cornell.edu
* Signature of Authorized Representative * Date Signed
Roberta Truscello 07/03/2008
20. Pre-application File Name: Mime Type:
21. Attach an additional list of Project Congressional Districts if needed.
File Name: Mime Type:
Tracking Number: GRANT00486761 Funding Opportunity Number: PA-07-070 Received Date: 2008-07-03 12:09:27.000-04:00 Time OMB Number: 4040-0001
Expiration Date: 04/30/2008
Zone: GMT-5

3. Principal Investigator/Program Director (Last, first, middle): Clark, Andrew, G.
424 R&R and PHS-398 Specific
Page Numbers
Table Of Contents
SF 424 R&R Face Page------------------------------------------------------------------------------------------ 1
Table of Contents--------------------------------------------------------------------------------------------- 3
Performance Sites--------------------------------------------------------------------------------------------- 4
Research & Related Other Project Information------------------------------------------------------------------ 5
Project Summary/Abstract (Description)---------------------------------------- 6
Public Health Relevance Statement (Narrative attachment)---------------------------------------- 7
Facilities & Other Resources---------------------------------------- 8
Equipment---------------------------------------- 9
Research & Related Senior/Key Person-------------------------------------------------------------------------- 10
Biographical Sketches for each listed Senior/Key Person---------------------------------------- 12
PHS 398 Specific Cover Page Supplement------------------------------------------------------------------------ 18
PHS 398 Specific Modular Budget------------------------------------------------------------------------------- 20
Personnel Justification---------------------------------------- 24
Consortium Justification---------------------------------------- 25
PHS 398 Specific Research Plan-------------------------------------------------------------------------------- 27
Introduction to Revised/Supplemental Application---------------------------------------- 30
Specific Aims---------------------------------------- 32
Significance and Related R&D---------------------------------------- 33
Preliminary Studies/Phase I Final Report---------------------------------------- 37
Experimental/Research Design and Methods---------------------------------------- 44
Progress Report Publication List---------------------------------------- 57
Multiple PI Leadership Plan---------------------------------------- 58
Bibliography & References Cited---------------------------------------- 59
Letters of Support---------------------------------------- 68
Resource Sharing Plan (Data Sharing and Model Organism Sharing)---------------------------------------- 72
PHS 398 Checklist--------------------------------------------------------------------------------------------- 73
Table of Contents Page 3

4. Principal Investigator/Program Director (Last, first, middle): Clark, Andrew, G.
RESEARCH & RELATED Project/Performance Site Location(s)
Project/Performance Site Primary Location
Organization Name: Cornell University
* Street1: 373 Pine Tree Road Street2:
* City: Ithaca County: Tompkins * State: NY: New York
* Country: USA: UNITED
Province: * Zip / Postal Code: 14850
STATES
Project/Performance Site Location 1
Organization Name: Federal University of Rio de Janeiro
* Street1: UFRJ, Ilha do Fundao Street2: CCS, Caixa Postal 68011
* City: Rio de Janeiro County: * State:
* Zip / Postal Code:
Province: * Country: BRA: BRAZIL
21944-970
File Name Mime Type
Additional Location(s)
Performance Sites Page 4
Tracking Number: GRANT00486761 OMB Number: 4040-0001
Expiration Date: 04/30/2008

5. Principal Investigator/Program Director (Last, first, middle): Clark, Andrew, G.
RESEARCH & RELATED Other Project Information
1. * Are Human Subjects Involved? ❍ Yes ● No
1.a. If YES to Human Subjects
Is the IRB review Pending? ❍ Yes ❍ No
IRB Approval Date:
Exemption Number: 1 2 3 4 5 6
Human Subject Assurance Number
2. * Are Vertebrate Animals Used? ❍ Yes ● No
2.a. If YES to Vertebrate Animals
Is the IACUC review Pending? ❍ Yes ❍ No
IACUC Approval Date:
Animal Welfare Assurance Number
3. * Is proprietary/privileged information ❍ Yes ● No
included in the application?
4.a. * Does this project have an actual or potential impact on ❍ Yes ● No
the environment?
4.b. If yes, please explain:
4.c. If this project has an actual or potential impact on the environment, has an exemption been authorized or an environmental assessment (EA) or
environmental impact statement (EIS) been performed? ❍ Yes ❍ No
4.d. If yes, please explain:
5.a. * Does this project involve activities outside the U.S. or ● Yes ❍ No
partnership with International Collaborators?
5.b. If yes, identify countries: Brazil
5.c. Optional Explanation:
6. * Project Summary/Abstract 3140-ClarkCarvalhoProjSumGM064590.pdf Type: application/pdf
Mime
7. * Project Narrative 8787-ClarkCarvalhoProjNarGM064590.pdf
Mime Type: application/pdf
8. Bibliography & References Cited 0074-ClarkCarvalhoReferencesGM064590.pdf Type: application/pdf
Mime
9. Facilities & Other Resources 9387-ClarkCarvalhoFacilitiesGM064590.pdf Type: application/pdf
Mime
10. Equipment 849-ClarkCarvalhoEquipGM064590.pdf Mime Type: application/pdf
Tracking Number: GRANT00486761 Other Information Page 5 OMB Number: 4040-0001
Expiration Date: 04/30/2008