Bar-Joseph Z - Search Results

1

Deconvolving cell cycle expression data with complementary information.

Bar-Joseph Z, Farkash S, Gifford DK, Simon I, Rosenfeld R. Bar-Joseph Z, et al. Bioinformatics. 2004 Aug 4;20 Suppl 1:i23-30. doi: 10.1093/bioinformatics/bth915. Bioinformatics. 2004. PMID: 15262777

2

scResolve: Recovering single cell expression profiles from multi-cellular spatial transcriptomics.

Chen H, Lee YJ, Ovando JA, Rosas L, Rojas M, Mora AL, Bar-Joseph Z, Lugo-Martinez J. Chen H, et al. bioRxiv [Preprint]. 2023 Dec 19:2023.12.18.572269. doi: 10.1101/2023.12.18.572269. bioRxiv. 2023. Update in: Cell Rep Methods. 2024 Oct 21;4(10):100864. doi: 10.1016/j.crmeth.2024.100864 PMID: 38187629 Free PMC article. Updated. Preprint.

3

Fast optimal leaf ordering for hierarchical clustering.

Bar-Joseph Z, Gifford DK, Jaakkola TS. Bar-Joseph Z, et al. Bioinformatics. 2001;17 Suppl 1:S22-9. doi: 10.1093/bioinformatics/17.suppl_1.s22. Bioinformatics. 2001. PMID: 11472989

4

Transcriptional regulatory networks in Saccharomyces cerevisiae.

Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA. Lee TI, et al. Science. 2002 Oct 25;298(5594):799-804. doi: 10.1126/science.1075090. Science. 2002. PMID: 12399584

5

K-ary clustering with optimal leaf ordering for gene expression data.

Bar-Joseph Z, Demaine ED, Gifford DK, Srebro N, Hamel AM, Jaakkola TS. Bar-Joseph Z, et al. Bioinformatics. 2003 Jun 12;19(9):1070-8. doi: 10.1093/bioinformatics/btg030. Bioinformatics. 2003. PMID: 12801867

6

Comparing the continuous representation of time-series expression profiles to identify differentially expressed genes.

Bar-Joseph Z, Gerber G, Simon I, Gifford DK, Jaakkola TS. Bar-Joseph Z, et al. Proc Natl Acad Sci U S A. 2003 Sep 2;100(18):10146-51. doi: 10.1073/pnas.1732547100. Epub 2003 Aug 21. Proc Natl Acad Sci U S A. 2003. PMID: 12934016 Free PMC article.

7

Continuous representations of time-series gene expression data.

Bar-Joseph Z, Gerber GK, Gifford DK, Jaakkola TS, Simon I. Bar-Joseph Z, et al. J Comput Biol. 2003;10(3-4):341-56. doi: 10.1089/10665270360688057. J Comput Biol. 2003. PMID: 12935332

8

Computational discovery of gene modules and regulatory networks.

Bar-Joseph Z, Gerber GK, Lee TI, Rinaldi NJ, Yoo JY, Robert F, Gordon DB, Fraenkel E, Jaakkola TS, Young RA, Gifford DK. Bar-Joseph Z, et al. Nat Biotechnol. 2003 Nov;21(11):1337-42. doi: 10.1038/nbt890. Epub 2003 Oct 12. Nat Biotechnol. 2003. PMID: 14555958 Free article.

9

Analyzing time series gene expression data.

Bar-Joseph Z. Bar-Joseph Z. Bioinformatics. 2004 Nov 1;20(16):2493-503. doi: 10.1093/bioinformatics/bth283. Epub 2004 May 6. Bioinformatics. 2004. PMID: 15130923 Review.

10

Clustering short time series gene expression data.

Ernst J, Nau GJ, Bar-Joseph Z. Ernst J, et al. Bioinformatics. 2005 Jun;21 Suppl 1:i159-68. doi: 10.1093/bioinformatics/bti1022. Bioinformatics. 2005. PMID: 15961453

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