Shmulevich I - Search Results

1

SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments.

Burdick DB, Cavnor CC, Handcock J, Killcoyne S, Lin J, Marzolf B, Ramsey SA, Rovira H, Bressler R, Shmulevich I, Boyle J. Burdick DB, et al. Among authors: shmulevich i. BMC Bioinformatics. 2010 Jul 14;11:377. doi: 10.1186/1471-2105-11-377. BMC Bioinformatics. 2010. PMID: 20630057 Free PMC article.

2

Simcluster: clustering enumeration gene expression data on the simplex space.

Vêncio RZ, Varuzza L, de B Pereira CA, Brentani H, Shmulevich I. Vêncio RZ, et al. Among authors: shmulevich i. BMC Bioinformatics. 2007 Jul 11;8:246. doi: 10.1186/1471-2105-8-246. BMC Bioinformatics. 2007. PMID: 17625017 Free PMC article.

3

ProbCD: enrichment analysis accounting for categorization uncertainty.

Vêncio RZ, Shmulevich I. Vêncio RZ, et al. Among authors: shmulevich i. BMC Bioinformatics. 2007 Oct 12;8:383. doi: 10.1186/1471-2105-8-383. BMC Bioinformatics. 2007. PMID: 17935624 Free PMC article.

4

The Innate Immune Database (IIDB).

Korb M, Rust AG, Thorsson V, Battail C, Li B, Hwang D, Kennedy KA, Roach JC, Rosenberger CM, Gilchrist M, Zak D, Johnson C, Marzolf B, Aderem A, Shmulevich I, Bolouri H. Korb M, et al. Among authors: shmulevich i. BMC Immunol. 2008 Mar 5;9:7. doi: 10.1186/1471-2172-9-7. BMC Immunol. 2008. PMID: 18321385 Free PMC article.

5

Uncovering a macrophage transcriptional program by integrating evidence from motif scanning and expression dynamics.

Ramsey SA, Klemm SL, Zak DE, Kennedy KA, Thorsson V, Li B, Gilchrist M, Gold ES, Johnson CD, Litvak V, Navarro G, Roach JC, Rosenberger CM, Rust AG, Yudkovsky N, Aderem A, Shmulevich I. Ramsey SA, et al. Among authors: shmulevich i. PLoS Comput Biol. 2008 Mar 21;4(3):e1000021. doi: 10.1371/journal.pcbi.1000021. PLoS Comput Biol. 2008. PMID: 18369420 Free PMC article.

6

Systems biology driven software design for the research enterprise.

Boyle J, Cavnor C, Killcoyne S, Shmulevich I. Boyle J, et al. Among authors: shmulevich i. BMC Bioinformatics. 2008 Jun 25;9:295. doi: 10.1186/1471-2105-9-295. BMC Bioinformatics. 2008. PMID: 18578887 Free PMC article.

7

Dynamic analysis of MAPK signaling using a high-throughput microfluidic single-cell imaging platform.

Taylor RJ, Falconnet D, Niemistö A, Ramsey SA, Prinz S, Shmulevich I, Galitski T, Hansen CL. Taylor RJ, et al. Among authors: shmulevich i. Proc Natl Acad Sci U S A. 2009 Mar 10;106(10):3758-63. doi: 10.1073/pnas.0813416106. Epub 2009 Feb 17. Proc Natl Acad Sci U S A. 2009. PMID: 19223588 Free PMC article.

8

Adaptable data management for systems biology investigations.

Boyle J, Rovira H, Cavnor C, Burdick D, Killcoyne S, Shmulevich I. Boyle J, et al. Among authors: shmulevich i. BMC Bioinformatics. 2009 Mar 6;10:79. doi: 10.1186/1471-2105-10-79. BMC Bioinformatics. 2009. PMID: 19265554 Free PMC article.

9

Function of C/EBPdelta in a regulatory circuit that discriminates between transient and persistent TLR4-induced signals.

Litvak V, Ramsey SA, Rust AG, Zak DE, Kennedy KA, Lampano AE, Nykter M, Shmulevich I, Aderem A. Litvak V, et al. Among authors: shmulevich i. Nat Immunol. 2009 Apr;10(4):437-43. doi: 10.1038/ni.1721. Epub 2009 Mar 8. Nat Immunol. 2009. PMID: 19270711 Free PMC article.

10

Fewer permutations, more accurate P-values.

Knijnenburg TA, Wessels LF, Reinders MJ, Shmulevich I. Knijnenburg TA, et al. Among authors: shmulevich i. Bioinformatics. 2009 Jun 15;25(12):i161-8. doi: 10.1093/bioinformatics/btp211. Bioinformatics. 2009. PMID: 19477983 Free PMC article.

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