Format
Items per page
Sort by

Send to:

Choose Destination

Search results

Items: 1 to 20 of 56

1.

Temporal transcriptional response to latency reversing agents identifies specific factors regulating HIV-1 viral transcriptional switch.

Venkatachari NJ, Zerbato JM, Jain S, Mancini AE, Chattopadhyay A, Sluis-Cremer N, Bar-Joseph Z, Ayyavoo V.

Retrovirology. 2015 Oct 6;12:85. doi: 10.1186/s12977-015-0211-3.

2.

De novo ChIP-seq analysis.

He X, Cicek AE, Wang Y, Schulz MH, Le HS, Bar-Joseph Z.

Genome Biol. 2015 Sep 23;16:205. doi: 10.1186/s13059-015-0756-4.

3.

Decreasing-Rate Pruning Optimizes the Construction of Efficient and Robust Distributed Networks.

Navlakha S, Barth AL, Bar-Joseph Z.

PLoS Comput Biol. 2015 Jul 28;11(7):e1004347. doi: 10.1371/journal.pcbi.1004347. eCollection 2015 Jul.

4.

cDREM: inferring dynamic combinatorial gene regulation.

Wise A, Bar-Joseph Z.

J Comput Biol. 2015 Apr;22(4):324-33. doi: 10.1089/cmb.2015.0010.

5.

Multitask learning of signaling and regulatory networks with application to studying human response to flu.

Jain S, Gitter A, Bar-Joseph Z.

PLoS Comput Biol. 2014 Dec 18;10(12):e1003943. doi: 10.1371/journal.pcbi.1003943. eCollection 2014 Dec.

6.

SMARTS: reconstructing disease response networks from multiple individuals using time series gene expression data.

Wise A, Bar-Joseph Z.

Bioinformatics. 2015 Apr 15;31(8):1250-7. doi: 10.1093/bioinformatics/btu800. Epub 2014 Dec 4.

7.

ModuleBlast: identifying activated sub-networks within and across species.

Zinman GE, Naiman S, O'Dee DM, Kumar N, Nau GJ, Cohen HY, Bar-Joseph Z.

Nucleic Acids Res. 2015 Feb 18;43(3):e20. doi: 10.1093/nar/gku1224. Epub 2014 Nov 26.

8.

Gene expression in relation to exhaled nitric oxide identifies novel asthma phenotypes with unique biomolecular pathways.

Modena BD, Tedrow JR, Milosevic J, Bleecker ER, Meyers DA, Wu W, Bar-Joseph Z, Erzurum SC, Gaston BM, Busse WW, Jarjour NN, Kaminski N, Wenzel SE.

Am J Respir Crit Care Med. 2014 Dec 15;190(12):1363-72. doi: 10.1164/rccm.201406-1099OC.

9.

Topological properties of robust biological and computational networks.

Navlakha S, He X, Faloutsos C, Bar-Joseph Z.

J R Soc Interface. 2014 Apr 30;11(96):20140283. doi: 10.1098/rsif.2014.0283. Print 2014 Jul 6.

10.

Carbon catabolite repression correlates with the maintenance of near invariant molecular crowding in proliferating E. coli cells.

Zhou Y, Vazquez A, Wise A, Warita T, Warita K, Bar-Joseph Z, Oltvai ZN.

BMC Syst Biol. 2013 Dec 12;7:138. doi: 10.1186/1752-0509-7-138.

11.

Predicting tissue specific transcription factor binding sites.

Zhong S, He X, Bar-Joseph Z.

BMC Genomics. 2013 Nov 15;14:796. doi: 10.1186/1471-2164-14-796.

12.

Future directions in idiopathic pulmonary fibrosis research. An NHLBI workshop report.

Blackwell TS, Tager AM, Borok Z, Moore BB, Schwartz DA, Anstrom KJ, Bar-Joseph Z, Bitterman P, Blackburn MR, Bradford W, Brown KK, Chapman HA, Collard HR, Cosgrove GP, Deterding R, Doyle R, Flaherty KR, Garcia CK, Hagood JS, Henke CA, Herzog E, Hogaboam CM, Horowitz JC, King TE Jr, Loyd JE, Lawson WE, Marsh CB, Noble PW, Noth I, Sheppard D, Olsson J, Ortiz LA, O'Riordan TG, Oury TD, Raghu G, Roman J, Sime PJ, Sisson TH, Tschumperlin D, Violette SM, Weaver TE, Wells RG, White ES, Kaminski N, Martinez FJ, Wynn TA, Thannickal VJ, Eu JP.

Am J Respir Crit Care Med. 2014 Jan 15;189(2):214-22. doi: 10.1164/rccm.201306-1141WS.

13.

Reconstructing dynamic microRNA-regulated interaction networks.

Schulz MH, Pandit KV, Lino Cardenas CL, Ambalavanan N, Kaminski N, Bar-Joseph Z.

Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15686-91. doi: 10.1073/pnas.1303236110. Epub 2013 Aug 28.

14.

A high-throughput framework to detect synapses in electron microscopy images.

Navlakha S, Suhan J, Barth AL, Bar-Joseph Z.

Bioinformatics. 2013 Jul 1;29(13):i9-17. doi: 10.1093/bioinformatics/btt222.

15.

Integrating sequence, expression and interaction data to determine condition-specific miRNA regulation.

Le HS, Bar-Joseph Z.

Bioinformatics. 2013 Jul 1;29(13):i89-97. doi: 10.1093/bioinformatics/btt231.

16.

Identifying proteins controlling key disease signaling pathways.

Gitter A, Bar-Joseph Z.

Bioinformatics. 2013 Jul 1;29(13):i227-36. doi: 10.1093/bioinformatics/btt241.

17.

Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis.

Chang KN, Zhong S, Weirauch MT, Hon G, Pelizzola M, Li H, Huang SS, Schmitz RJ, Urich MA, Kuo D, Nery JR, Qiao H, Yang A, Jamali A, Chen H, Ideker T, Ren B, Bar-Joseph Z, Hughes TR, Ecker JR.

Elife. 2013 Jun 11;2:e00675. doi: 10.7554/eLife.00675.

18.

MicroRNA regulation and its effects on cellular transcriptome in human immunodeficiency virus-1 (HIV-1) infected individuals with distinct viral load and CD4 cell counts.

Duskova K, Nagilla P, Le HS, Iyer P, Thalamuthu A, Martinson J, Bar-Joseph Z, Buchanan W, Rinaldo C, Ayyavoo V.

BMC Infect Dis. 2013 May 30;13:250. doi: 10.1186/1471-2334-13-250.

19.

Probabilistic error correction for RNA sequencing.

Le HS, Schulz MH, McCauley BM, Hinman VF, Bar-Joseph Z.

Nucleic Acids Res. 2013 May 1;41(10):e109. doi: 10.1093/nar/gkt215. Epub 2013 Apr 4.

20.

Linking the signaling cascades and dynamic regulatory networks controlling stress responses.

Gitter A, Carmi M, Barkai N, Bar-Joseph Z.

Genome Res. 2013 Feb;23(2):365-76. doi: 10.1101/gr.138628.112. Epub 2012 Oct 11.

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Loading ...
Write to the Help Desk