Abstract

The goal of this proposal is: To provide the scientific community with an unprecedented amount of assembled high-quality genome sequence, sufficient in quantity and quality to solve some of the central intellectual questions in genomics. In particular, the genome sequence will allow comparative studies to identify the vast majority of functional elements encoded in the human genome. It will also allow extensive characterization of the biological diversity in the animal and fungal kingdoms. We propose to do this, over a three-year period, by producing: Shotgun sequence: approximately 331 million reads yielding, approximately 205 Gb of high-quality raw bases, and approximately 32 Gb of high-quality draft genome assembly; Polished sequence: approximately 10 Gb; and Finished sequence: approximately 1.5 Gb. We also plan to aggressively improve the efficiency of the genome sequencing process. The cost of high quality draft sequence of a typical mammalian genome (about 2.7 Gb) will be approximately $25M in Year 1 and decrease to about $16M by Year 3.

  Funding Agency

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Specialized Center--Cooperative Agreements (U54)
Project #
5U54HG003067-03
Application #
6999359
Study Section
Special Emphasis Panel (ZHG1-HGR-P (O1))
Program Officer
Felsenfeld, Adam
Project Start
2003-11-10
Project End
2006-11-30
Budget Start
2005-11-01
Budget End
2006-11-30
Support Year
3
Fiscal Year
2006
Total Cost
$48,005,738
Indirect Cost

  Institution

Name
Massachusetts Institute of Technology
Department
Type
Organized Research Units
DUNS #
001425594
City
Cambridge
State
MA
Country
United States
Zip Code
02139

  Publications

Wang, S-H; Hsiao, P-C; Yeh, L-L et al. (2018) Polygenic risk for schizophrenia and neurocognitive performance in patients with schizophrenia. Genes Brain Behav 17:49-55
Ricketts, Christopher J; De Cubas, Aguirre A; Fan, Huihui et al. (2018) The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma. Cell Rep 23:313-326.e5
Arbesman, Joshua; Ravichandran, Sairekha; Funchain, Pauline et al. (2018) Melanoma cases demonstrate increased carrier frequency of phenylketonuria/hyperphenylalanemia mutations. Pigment Cell Melanoma Res 31:529-533
Knijnenburg, Theo A; Wang, Linghua; Zimmermann, Michael T et al. (2018) Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas. Cell Rep 23:239-254.e6
Raghavan, Neha S; Brickman, Adam M; Andrews, Howard et al. (2018) Whole-exome sequencing in 20,197 persons for rare variants in Alzheimer's disease. Ann Clin Transl Neurol 5:832-842
Persinoti, Gabriela F; Martinez, Diego A; Li, Wenjun et al. (2018) Whole-Genome Analysis Illustrates Global Clonal Population Structure of the Ubiquitous Dermatophyte Pathogen Trichophyton rubrum. Genetics 208:1657-1669
Jayasinghe, Reyka G; Cao, Song; Gao, Qingsong et al. (2018) Systematic Analysis of Splice-Site-Creating Mutations in Cancer. Cell Rep 23:270-281.e3
Blue, E E; Yu, C-E; Thornton, T A et al. (2018) Variants regulating ZBTB4 are associated with age-at-onset of Alzheimer's disease. Genes Brain Behav 17:e12429
Cissé, Ousmane H; Ma, Liang; Wei Huang, Da et al. (2018) Comparative Population Genomics Analysis of the Mammalian Fungal Pathogen Pneumocystis. MBio 9:
Ojha, Juhi; Dyagil, Iryna; Finch, Stuart C et al. (2018) Genomic characterization of chronic lymphocytic leukemia (CLL) in radiation-exposed Chornobyl cleanup workers. Environ Health 17:43

Showing the most recent 10 out of 349 publications