2008 |
20 | 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) |
19 | EE | Maxim Kalaev,
Mike Smoot,
Trey Ideker,
Roded Sharan:
NetworkBLAST: comparative analysis of protein networks.
Bioinformatics 24(4): 594-596 (2008) |
2007 |
18 | | 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 |
17 | 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 |
16 | 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 |
15 | | 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 |
14 | EE | Sourav Bandyopadhyay,
Ryan M. Kelley,
Trey Ideker:
Discovering Regulated Networks During HIV-1 Latency and Reactivation.
Pacific Symposium on Biocomputing 2006: 354-366 |
13 | EE | Trey Ideker,
Alfonso Valencia:
Bioinformatics in the human interactome project.
Bioinformatics 22(24): 2973-2974 (2006) |
12 | EE | Jacob Scott,
Trey Ideker,
Richard M. Karp,
Roded Sharan:
Efficient Algorithms for Detecting Signaling Pathways in Protein Interaction Networks.
Journal of Computational Biology 13(2): 133-144 (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) |