Rastogi C - Search Results

1

Context-Dependent Gene Regulation by Homeodomain Transcription Factor Complexes Revealed by Shape-Readout Deficient Proteins.

Kribelbauer JF, Loker RE, Feng S, Rastogi C, Abe N, Rube HT, Bussemaker HJ, Mann RS. Kribelbauer JF, et al. Among authors: rastogi c. Mol Cell. 2020 Apr 2;78(1):152-167.e11. doi: 10.1016/j.molcel.2020.01.027. Epub 2020 Feb 12. Mol Cell. 2020. PMID: 32053778 Free PMC article.

2

SELEX-seq: a method for characterizing the complete repertoire of binding site preferences for transcription factor complexes.

Riley TR, Slattery M, Abe N, Rastogi C, Liu D, Mann RS, Bussemaker HJ. Riley TR, et al. Among authors: rastogi c. Methods Mol Biol. 2014;1196:255-78. doi: 10.1007/978-1-4939-1242-1_16. Methods Mol Biol. 2014. PMID: 25151169 Free PMC article.

3

Evolving insights on how cytosine methylation affects protein-DNA binding.

Dantas Machado AC, Zhou T, Rao S, Goel P, Rastogi C, Lazarovici A, Bussemaker HJ, Rohs R. Dantas Machado AC, et al. Among authors: rastogi c. Brief Funct Genomics. 2015 Jan;14(1):61-73. doi: 10.1093/bfgp/elu040. Epub 2014 Oct 14. Brief Funct Genomics. 2015. PMID: 25319759 Free PMC article. Review.

4

SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site.

Zhang L, Martini GD, Rube HT, Kribelbauer JF, Rastogi C, FitzPatrick VD, Houtman JC, Bussemaker HJ, Pufall MA. Zhang L, et al. Among authors: rastogi c. Genome Res. 2018 Jan;28(1):111-121. doi: 10.1101/gr.222844.117. Epub 2017 Dec 1. Genome Res. 2018. PMID: 29196557 Free PMC article.

5

A unified approach for quantifying and interpreting DNA shape readout by transcription factors.

Rube HT, Rastogi C, Kribelbauer JF, Bussemaker HJ. Rube HT, et al. Among authors: rastogi c. Mol Syst Biol. 2018 Feb 22;14(2):e7902. doi: 10.15252/msb.20177902. Mol Syst Biol. 2018. PMID: 29472273 Free PMC article.

6

Accurate and sensitive quantification of protein-DNA binding affinity.

Rastogi C, Rube HT, Kribelbauer JF, Crocker J, Loker RE, Martini GD, Laptenko O, Freed-Pastor WA, Prives C, Stern DL, Mann RS, Bussemaker HJ. Rastogi C, et al. Proc Natl Acad Sci U S A. 2018 Apr 17;115(16):E3692-E3701. doi: 10.1073/pnas.1714376115. Epub 2018 Apr 2. Proc Natl Acad Sci U S A. 2018. PMID: 29610332 Free PMC article.

7

Low-Affinity Binding Sites and the Transcription Factor Specificity Paradox in Eukaryotes.

Kribelbauer JF, Rastogi C, Bussemaker HJ, Mann RS. Kribelbauer JF, et al. Among authors: rastogi c. Annu Rev Cell Dev Biol. 2019 Oct 6;35:357-379. doi: 10.1146/annurev-cellbio-100617-062719. Epub 2019 Jul 5. Annu Rev Cell Dev Biol. 2019. PMID: 31283382 Free PMC article. Review.

8

In vivo Hox binding specificity revealed by systematic changes to a single cis regulatory module.

Sánchez-Higueras C, Rastogi C, Voutev R, Bussemaker HJ, Mann RS, Hombría JC. Sánchez-Higueras C, et al. Among authors: rastogi c. Nat Commun. 2019 Aug 9;10(1):3597. doi: 10.1038/s41467-019-11416-1. Nat Commun. 2019. PMID: 31399572 Free PMC article.

9

Prediction of protein-ligand binding affinity from sequencing data with interpretable machine learning.

Rube HT, Rastogi C, Feng S, Kribelbauer JF, Li A, Becerra B, Melo LAN, Do BV, Li X, Adam HH, Shah NH, Mann RS, Bussemaker HJ. Rube HT, et al. Among authors: rastogi c. Nat Biotechnol. 2022 Oct;40(10):1520-1527. doi: 10.1038/s41587-022-01307-0. Epub 2022 May 23. Nat Biotechnol. 2022. PMID: 35606422 Free PMC article.

10

Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors.

Feng S, Rastogi C, Loker R, Glassford WJ, Tomas Rube H, Bussemaker HJ, Mann RS. Feng S, et al. Among authors: rastogi c. Nat Commun. 2022 Jul 1;13(1):3808. doi: 10.1038/s41467-022-31501-2. Nat Commun. 2022. PMID: 35778382 Free PMC article.

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