Bar-Joseph Z - Search Results

1

Reconstructed signaling and regulatory networks identify potential drugs for SARS-CoV-2 infection.

Ding J, Lugo-Martinez J, Yuan Y, Huang J, Hume AJ, Suder EL, Mühlberger E, Kotton DN, Bar-Joseph Z. Ding J, et al. bioRxiv [Preprint]. 2021 Dec 9:2020.06.01.127589. doi: 10.1101/2020.06.01.127589. bioRxiv. 2021. PMID: 33083801 Free PMC article. Preprint.

2

Multiset multicover methods for discriminative marker selection.

Hasanaj E, Alavi A, Gupta A, Póczos B, Bar-Joseph Z. Hasanaj E, et al. Cell Rep Methods. 2022 Nov 11;2(11):100332. doi: 10.1016/j.crmeth.2022.100332. eCollection 2022 Nov 21. Cell Rep Methods. 2022. PMID: 36452867 Free PMC article.

3

TASIC: determining branching models from time series single cell data.

Rashid S, Kotton DN, Bar-Joseph Z. Rashid S, et al. Bioinformatics. 2017 Aug 15;33(16):2504-2512. doi: 10.1093/bioinformatics/btx173. Bioinformatics. 2017. PMID: 28379537

4

MethRaFo: MeDIP-seq methylation estimate using a Random Forest Regressor.

Ding J, Bar-Joseph Z. Ding J, et al. Bioinformatics. 2017 Nov 1;33(21):3477-3479. doi: 10.1093/bioinformatics/btx449. Bioinformatics. 2017. PMID: 29036558 Free PMC article.

5

Reconstructing differentiation networks and their regulation from time series single-cell expression data.

Ding J, Aronow BJ, Kaminski N, Kitzmiller J, Whitsett JA, Bar-Joseph Z. Ding J, et al. Genome Res. 2018 Mar 1;28(3):383-395. doi: 10.1101/gr.225979.117. Genome Res. 2018. PMID: 29317474 Free PMC article.

6

iDREM: Interactive visualization of dynamic regulatory networks.

Ding J, Hagood JS, Ambalavanan N, Kaminski N, Bar-Joseph Z. Ding J, et al. PLoS Comput Biol. 2018 Mar 14;14(3):e1006019. doi: 10.1371/journal.pcbi.1006019. eCollection 2018 Mar. PLoS Comput Biol. 2018. PMID: 29538379 Free PMC article.

7

Cell lineage inference from SNP and scRNA-Seq data.

Ding J, Lin C, Bar-Joseph Z. Ding J, et al. Nucleic Acids Res. 2019 Jun 4;47(10):e56. doi: 10.1093/nar/gkz146. Nucleic Acids Res. 2019. PMID: 30820578 Free PMC article.

8

Dynamic interaction network inference from longitudinal microbiome data.

Lugo-Martinez J, Ruiz-Perez D, Narasimhan G, Bar-Joseph Z. Lugo-Martinez J, et al. Microbiome. 2019 Apr 2;7(1):54. doi: 10.1186/s40168-019-0660-3. Microbiome. 2019. PMID: 30940197 Free PMC article.

9

Integrating multiomics longitudinal data to reconstruct networks underlying lung development.

Ding J, Ahangari F, Espinoza CR, Chhabra D, Nicola T, Yan X, Lal CV, Hagood JS, Kaminski N, Bar-Joseph Z, Ambalavanan N. Ding J, et al. Am J Physiol Lung Cell Mol Physiol. 2019 Nov 1;317(5):L556-L568. doi: 10.1152/ajplung.00554.2018. Epub 2019 Aug 21. Am J Physiol Lung Cell Mol Physiol. 2019. PMID: 31432713 Free PMC article.

10

Deep learning for inferring gene relationships from single-cell expression data.

Yuan Y, Bar-Joseph Z. Yuan Y, et al. Proc Natl Acad Sci U S A. 2019 Dec 26;116(52):27151-27158. doi: 10.1073/pnas.1911536116. Epub 2019 Dec 10. Proc Natl Acad Sci U S A. 2019. PMID: 31822622 Free PMC article.

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