Trey Ideker

2008
19	EE	Ryan M. Kelley, Hoda Feizi, Trey Ideker: Correcting for gene-specific dye bias in DNA microarrays using the method of maximum likelihood. Bioinformatics 24(1): 71-77 (2008)
18	EE	Maxim Kalaev, Mike Smoot, Trey Ideker, Roded Sharan: NetworkBLAST: comparative analysis of protein networks. Bioinformatics 24(4): 594-596 (2008)
2007
17		Trey Ideker, Vineet Bafna: Systems Biology and Computational Proteomics, Joint RECOMB 2006 Satellite Workshops on Systems Biology and on Computational Proteomics, San Diego, CA, USA, December 1-3, 2006, Revised Selected Papers Springer 2007
16	EE	Oved Ourfali, Tomer Shlomi, Trey Ideker, Eytan Ruppin, Roded Sharan: SPINE: a framework for signaling-regulatory pathway inference from cause-effect experiments. ISMB/ECCB (Supplement of Bioinformatics) 2007: 359-366
15	EE	H. Craig Mak, Mike Daly, Bianca Gruebel, Trey Ideker: CellCircuits: a database of protein network models. Nucleic Acids Research 35(Database-Issue): 538-545 (2007)
2006
14		Eleazar Eskin, Trey Ideker, Benjamin J. Raphael, Christopher T. Workman: Systems Biology and Regulatory Genomics, Joint Annual RECOMB 2005 Satellite Workshops on Systems Biology and on Regulatory Genomics, San Diego, CA, USA; December 2-4, 2005, Revised Selected Papers Springer 2006
13	EE	Sourav Bandyopadhyay, Ryan M. Kelley, Trey Ideker: Discovering Regulated Networks During HIV-1 Latency and Reactivation. Pacific Symposium on Biocomputing 2006: 354-366
12	EE	Trey Ideker, Alfonso Valencia: Bioinformatics in the human interactome project. Bioinformatics 22(24): 2973-2974 (2006)
2005
11	EE	Jacob Scott, Trey Ideker, Richard M. Karp, Roded Sharan: Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks. RECOMB 2005: 1-13
10	EE	Silpa Suthram, Tomer Shlomi, Eytan Ruppin, Roded Sharan, Trey Ideker: Comparison of Protein-Protein Interaction Confidence Assignment Schemes. Systems Biology and Regulatory Genomics 2005: 39-50
9	EE	Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp: Identification of Protein Complexes by Comparative Analysis of Yeast and Bacterial Protein Interaction Data. Journal of Computational Biology 12(6): 835-846 (2005)
8	EE	Christopher T. Workman, Yutong Yin, David L. Corcoran, Trey Ideker, Gary D. Stormo, Panayiotis V. Benos: enoLOGOS: a versatile web tool for energy normalized sequence logos. Nucleic Acids Research 33(Web-Server-Issue): 389-392 (2005)
7	EE	Albert Hsiao, Trey Ideker, Jerrold M. Olefsky, Shankar Subramaniam: VAMPIRE microarray suite: a web-based platform for the interpretation of gene expression data. Nucleic Acids Research 33(Web-Server-Issue): 627-632 (2005)
2004
6	EE	Trey Ideker, Erik K. Neumann, Vincent Schächter: Session Introduction. Pacific Symposium on Biocomputing 2004: 471-473
5	EE	Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp: Identification of protein complexes by comparative analysis of yeast and bacterial protein interaction data. RECOMB 2004: 282-289
4	EE	Chen-Hsiang Yeang, Trey Ideker, Tommi Jaakkola: Physical Network Models. Journal of Computational Biology 11(2/3): 243-262 (2004)
3		Brian P. Kelley, Bingbing Yuan, Fran Lewitter, Roded Sharan, Brent R. Stockwell, Trey Ideker: PathBLAST: a tool for alignment of protein interaction networks. Nucleic Acids Research 32(Web-Server-Issue): 83-88 (2004)
2002
2		Trey Ideker, Owen Ozier, Benno Schwikowski, Andrew F. Siegel: Discovering regulatory and signalling circuits in molecular interaction networks. ISMB 2002: 233-240
2000
1		Trey Ideker, Vesteinn Thorsson, Andrew F. Siegel, Leroy E. Hood: Testing for Differentially-Expressed Genes by Maximum-Likelihood Analysis of Microarray Data. Journal of Computational Biology 7(6): 805-817 (2000)

Coauthor Index

1	Vineet Bafna	[17]
2	Sourav Bandyopadhyay	[13]
3	Panayiotis V. Benos	[8]
4	David L. Corcoran	[8]
5	Mike Daly	[15]
6	Eleazar Eskin	[14]
7	Hoda Feizi	[19]
8	Bianca Gruebel	[15]
9	Leroy E. Hood	[1]
10	Albert Hsiao	[7]
11	Tommi Jaakkola	[4]
12	Maxim Kalaev	[18]
13	Richard M. Karp	[5] [9] [11]
14	Brian P. Kelley	[3] [5] [9]
15	Ryan M. Kelley	[13] [19]
16	Fran Lewitter	[3]
17	H. Craig Mak	[15]
18	Erik K. Neumann	[6]
19	Jerrold M. Olefsky	[7]
20	Oved Ourfali	[16]
21	Owen Ozier	[2]
22	Benjamin J. Raphael	[14]
23	Eytan Ruppin	[10] [16]
24	Vincent Schächter	[6]
25	Benno Schwikowski	[2]
26	Jacob Scott	[11]
27	Ron Shamir	[5] [9]
28	Roded Sharan	[3] [5] [9] [10] [11] [16] [18]
29	Tomer Shlomi	[10] [16]
30	Andrew F. Siegel	[1] [2]
31	Mike Smoot	[18]
32	Brent R. Stockwell	[3]
33	Gary D. Stormo	[8]
34	Shankar Subramaniam	[7]
35	Silpa Suthram	[10]
36	Vesteinn Thorsson	[1]
37	Alfonso Valencia	[12]
38	Christopher T. Workman	[8] [14]
39	Chen-Hsiang Yeang	[4]
40	Yutong Yin	[8]
41	Bingbing Yuan	[3]

Colors in the list of coauthors