Roy S - Search Results

1

Temporal change in chromatin accessibility predicts regulators of nodulation in Medicago truncatula.

Knaack SA, Conde D, Chakraborty S, Balmant KM, Irving TB, Maia LGS, Triozzi PM, Dervinis C, Pereira WJ, Maeda J, Schmidt HW, Ané JM, Kirst M, Roy S. Knaack SA, et al. Among authors: roy s. BMC Biol. 2022 Nov 9;20(1):252. doi: 10.1186/s12915-022-01450-9. BMC Biol. 2022. PMID: 36352404 Free PMC article.

2

A pan-cancer modular regulatory network analysis to identify common and cancer-specific network components.

Knaack SA, Siahpirani AF, Roy S. Knaack SA, et al. Among authors: roy s. Cancer Inform. 2014 Oct 28;13(Suppl 5):69-84. doi: 10.4137/CIN.S14058. eCollection 2014. Cancer Inform. 2014. PMID: 25374456 Free PMC article.

3

Deep Sequencing of the Medicago truncatula Root Transcriptome Reveals a Massive and Early Interaction between Nodulation Factor and Ethylene Signals.

Larrainzar E, Riely BK, Kim SC, Carrasquilla-Garcia N, Yu HJ, Hwang HJ, Oh M, Kim GB, Surendrarao AK, Chasman D, Siahpirani AF, Penmetsa RV, Lee GS, Kim N, Roy S, Mun JH, Cook DR. Larrainzar E, et al. Among authors: roy s. Plant Physiol. 2015 Sep;169(1):233-65. doi: 10.1104/pp.15.00350. Epub 2015 Jul 14. Plant Physiol. 2015. PMID: 26175514 Free PMC article.

4

A predictive modeling approach for cell line-specific long-range regulatory interactions.

Roy S, Siahpirani AF, Chasman D, Knaack S, Ay F, Stewart R, Wilson M, Sridharan R. Roy S, et al. Nucleic Acids Res. 2015 Oct 15;43(18):8694-712. doi: 10.1093/nar/gkv865. Epub 2015 Sep 3. Nucleic Acids Res. 2015. PMID: 26338778 Free PMC article.

5

Reconstruction and Analysis of the Evolution of Modular Transcriptional Regulatory Programs Using Arboretum.

Knaack SA, Thompson DA, Roy S. Knaack SA, et al. Among authors: roy s. Methods Mol Biol. 2016;1361:375-89. doi: 10.1007/978-1-4939-3079-1_21. Methods Mol Biol. 2016. PMID: 26483033 Free PMC article.

6

A predictive modeling approach for cell line-specific long-range regulatory interactions.

Roy S, Siahpirani AF, Chasman D, Knaack S, Ay F, Stewart R, Wilson M, Sridharan R. Roy S, et al. Nucleic Acids Res. 2016 Feb 29;44(4):1977-8. doi: 10.1093/nar/gkv1181. Epub 2015 Nov 5. Nucleic Acids Res. 2016. PMID: 26546512 Free PMC article. No abstract available.

7

A proteomic atlas of the legume Medicago truncatula and its nitrogen-fixing endosymbiont Sinorhizobium meliloti.

Marx H, Minogue CE, Jayaraman D, Richards AL, Kwiecien NW, Siahpirani AF, Rajasekar S, Maeda J, Garcia K, Del Valle-Echevarria AR, Volkening JD, Westphall MS, Roy S, Sussman MR, Ané JM, Coon JJ. Marx H, et al. Among authors: roy s. Nat Biotechnol. 2016 Nov;34(11):1198-1205. doi: 10.1038/nbt.3681. Epub 2016 Oct 17. Nat Biotechnol. 2016. PMID: 27748755 Free PMC article.

8

Physiological Responses and Gene Co-Expression Network of Mycorrhizal Roots under K⁺ Deprivation.

Garcia K, Chasman D, Roy S, Ané JM. Garcia K, et al. Among authors: roy s. Plant Physiol. 2017 Mar;173(3):1811-1823. doi: 10.1104/pp.16.01959. Epub 2017 Feb 3. Plant Physiol. 2017. PMID: 28159827 Free PMC article.

9

Inference and Evolutionary Analysis of Genome-Scale Regulatory Networks in Large Phylogenies.

Koch C, Konieczka J, Delorey T, Lyons A, Socha A, Davis K, Knaack SA, Thompson D, O'Shea EK, Regev A, Roy S. Koch C, et al. Among authors: roy s. Cell Syst. 2017 May 24;4(5):543-558.e8. doi: 10.1016/j.cels.2017.04.010. Cell Syst. 2017. PMID: 28544882 Free PMC article.

10

In silico prediction of high-resolution Hi-C interaction matrices.

Zhang S, Chasman D, Knaack S, Roy S. Zhang S, et al. Among authors: roy s. Nat Commun. 2019 Dec 6;10(1):5449. doi: 10.1038/s41467-019-13423-8. Nat Commun. 2019. PMID: 31811132 Free PMC article.

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