YS9900S Young Investigator (PI Gerstein)
7/1/99 - 6/30/04
W.M. Keck Foundation
Comparing Genomes in terms of Protein Structure
Role: PI
The major goals of this young investigator grant are to build a library of protein folds organizing the known protein structures and then to compare genomes, particularly those of pathogenic organisms, in terms of their usage of folds from this list. However, the flexible nature of the funding allows working on a variety of related projects.
This grant has greatly benefited the Gerstein laboratory by allowing it to expand into new areas and participate in large-scale studies in the capital-intensive field of genomics.
Related material:Proposal [ doc ] [ pdf ]
Award Annoucement in Science [ gif1 ] [ gif2 ]
Year 1 report [ doc ][ html ] (figures [ doc ][ pdf ])
Year 2 report [ doc ][ html ]
Year 3 report [ doc ][ html ]
Year 3 short overview talk [ ppt ]
Year 3 long summary talk [ ppt ]
Year 4 report [ doc ][ html ]
Year 5 report [ doc ][ html ]
Year 6 report [ doc ][ html ]
URL: http://www.wmkeck.org
Articles funded by this grant:
AY Yam, Y Xia, HT Lin, A Burlingame, M Gerstein, J Frydman (2008). Nat Struct Mol Biol 15: 1255-62.
D Greenbaum, J Du, M Gerstein (2008). Am J Bioeth 8: 71-4.
A Rzhetsky, M Seringhaus, M Gerstein (2008). Cell 134: 9-13.
PE Bourne, JL Fink, M Gerstein (2008). PLoS Comput Biol 4: e1000037.
M Seringhaus, M Gerstein (2008). FEBS Lett 582: 1170.
MR Seringhaus, PD Cayting, MB Gerstein (2008). Genome Biol 9: 401.
KH Cheung, AK Smith, KYL Yip, CJO Baker, MB Gerstein (2007). in Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences (eds. C Baker and K Cheung, Springer, NY), pp. 11-30
D Greenbaum, M Gerstein (2007). in Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences (eds. C Baker and K Cheung, Springer, NY), pp. 413-433
AJ McClellan, Y Xia, AM Deutschbauer, RW Davis, M Gerstein, J Frydman (2007). Cell 131: 121-35.
SC Flores, LJ Lu, J Yang, N Carriero, MB Gerstein (2007). BMC Bioinformatics 8: 167.
MR Seringhaus, MB Gerstein (2007). BMC Bioinformatics 8: 17.
M Seringhaus, M Gerstein (2007). Science 315: 40-1.
M Gerstein, D Greenbaum, K Cheung, PL Miller (2007). J Biomed Inform 40: 73-9.
Seringhaus M, Gerstein M (2006). The Scientist. 20(9): 25
NR Voss, M Gerstein, TA Steitz, PB Moore (2006). J Mol Biol 360: 893-906.
S Flores, N Echols, D Milburn, B Hespenheide, K Keating, J Lu, S Wells, EZ Yu, M Thorpe, M Gerstein (2006). Nucleic Acids Res 34: D296-301.
Y Gilad, SA Rifkin, P Bertone, M Gerstein, KP White (2005). Genome Res 15: 674-80.
WG Krebs, J Tsai, V Alexandrov, J Junker, R Jansen, M Gerstein (2003). Methods Enzymol 374: 544-84.
Z Zhang, M Gerstein (2003). Genomics 81: 468-80.
M Snyder, M Gerstein (2003). Science 300: 258-60.
PM Harrison, D Milburn, Z Zhang, P Bertone, M Gerstein (2003). Nucleic Acids Res 31: 1033-7.
D Greenbaum, R Jansen, M Gerstein (2002). Bioinformatics 18: 585-96.
R Jansen, D Greenbaum, M Gerstein (2002). Genome Res 12: 37-46.
ZL Zhang, PM Harrison, M Gerstein (2002). J Mol Biol 323: 811-22.
Y Liu, DM Engelman, M Gerstein (2002). Genome Biol 3: research0054.
WG Krebs, V Alexandrov, CA Wilson, N Echols, H Yu, M Gerstein (2002). Proteins 48: 682-95.
NM Luscombe, J Qian, Z Zhang, T Johnson, M Gerstein (2002). Genome Biol 3: RESEARCH0040.
G Giaever, AM Chu, L Ni, C Connelly, L Riles, S Veronneau, S Dow, A Lucau-Danila, K Anderson, B Andre, AP Arkin, A Astromoff, M El-Bakkoury, R Bangham, R Benito, S Brachat, S Campanaro, M Curtiss, K Davis, A Deutschbauer, KD Entian, P Flaherty, F Foury, DJ Garfinkel, M Gerstein, D Gotte, U Guldener, JH Hegemann, S Hempel, Z Herman, DF Jaramillo, DE Kelly, SL Kelly, P Kotter, D LaBonte, DC Lamb, N Lan, H Liang, H Liao, L Liu, C Luo, M Lussier, R Mao, P Menard, SL Ooi, JL Revuelta, CJ Roberts, M Rose, P Ross-Macdonald, B Scherens, G Schimmack, B Shafer, DD Shoemaker, S Sookhai-Mahadeo, RK Storms, JN Strathern, G Valle, M Voet, G Volckaert, CY Wang, TR Ward, J Wilhelmy, EA Winzeler, Y Yang, G Yen, E Youngman, K Yu, H Bussey, JD Boeke, M Snyder, P Philippsen, RW Davis, M Johnston (2002). Nature 418: 387-91.
S Balasubramanian, P Harrison, H Hegyi, P Bertone, N Luscombe, N Echols, P McGarvey, Z Zhang, M Gerstein (2002). Pharmacogenomics 3: 393-402.
N Echols, P Harrison, S Balasubramanian, NM Luscombe, P Bertone, Z Zhang, M Gerstein (2002). Nucleic Acids Res 30: 2515-23.
CE Horak, MC Mahajan, NM Luscombe, M Gerstein, SM Weissman, M Snyder (2002). Proc Natl Acad Sci U S A 99: 2924-9.
A Kumar, PM Harrison, KH Cheung, N Lan, N Echols, P Bertone, P Miller, MB Gerstein, M Snyder (2002). Nat Biotechnol 20: 58-63.
J Qian, NM Luscombe, M Gerstein (2001). J Mol Biol 313: 673-81.
J Qian, M Dolled-Filhart, J Lin, H Yu, M Gerstein (2001). J Mol Biol 314: 1053-66.
PM Harrison, N Echols, MB Gerstein (2001). Nucleic Acids Res 29: 818-30.
J Qian, B Stenger, CA Wilson, J Lin, R Jansen, SA Teichmann, J Park, WG Krebs, H Yu, V Alexandrov, N Echols, M Gerstein (2001). Nucleic Acids Res 29: 1750-64.
M Gerstein (2000). Nat Struct Biol 7 Suppl: 960-3.
A Drawid, R Jansen, M Gerstein (2000). Trends Genet 16: 426-30.
M Gerstein, R Jansen (2000). Curr Opin Struct Biol 10: 574-84.
R Das, M Gerstein (2000). Funct Integr Genomics 1: 76-88.
GJ Naylor, M Gerstein (2000). J Mol Evol 51: 223-33.
A Drawid, M Gerstein (2000). J Mol Biol 301: 1059-75.
S Balasubramanian, T Schneider, M Gerstein, L Regan (2000). Nucleic Acids Res 28: 3075-82.
M Gerstein, J Lin, H Hegyi (2000). Pac Symp Biocomput : 30-41.
WG Krebs, M Gerstein (2000). Nucleic Acids Res 28: 1665-75.
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