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Transcription factor-DNA binding: beyond binding site motifs.
Inukai S, Kock KH, Bulyk ML. Inukai S, et al. Among authors: kock kh. Curr Opin Genet Dev. 2017 Apr;43:110-119. doi: 10.1016/j.gde.2017.02.007. Epub 2017 Mar 27. Curr Opin Genet Dev. 2017. PMID: 28359978 Free PMC article. Review.
Single-nucleotide variant calling in single-cell sequencing data with Monopogen.
Dou J, Tan Y, Kock KH, Wang J, Cheng X, Tan LM, Han KY, Hon CC, Park WY, Shin JW, Jin H, Wang Y, Chen H, Ding L, Prabhakar S, Navin N, Chen R, Chen K. Dou J, et al. Among authors: kock kh. Nat Biotechnol. 2024 May;42(5):803-812. doi: 10.1038/s41587-023-01873-x. Epub 2023 Aug 17. Nat Biotechnol. 2024. PMID: 37592035 Free PMC article.
Common variants in signaling transcription-factor-binding sites drive phenotypic variability in red blood cell traits.
Choudhuri A, Trompouki E, Abraham BJ, Colli LM, Kock KH, Mallard W, Yang ML, Vinjamur DS, Ghamari A, Sporrij A, Hoi K, Hummel B, Boatman S, Chan V, Tseng S, Nandakumar SK, Yang S, Lichtig A, Superdock M, Grimes SN, Bowman TV, Zhou Y, Takahashi S, Joehanes R, Cantor AB, Bauer DE, Ganesh SK, Rinn J, Albert PS, Bulyk ML, Chanock SJ, Young RA, Zon LI. Choudhuri A, et al. Among authors: kock kh. Nat Genet. 2020 Dec;52(12):1333-1345. doi: 10.1038/s41588-020-00738-2. Epub 2020 Nov 23. Nat Genet. 2020. PMID: 33230299 Free PMC article.
Survey of variation in human transcription factors reveals prevalent DNA binding changes.
Barrera LA, Vedenko A, Kurland JV, Rogers JM, Gisselbrecht SS, Rossin EJ, Woodard J, Mariani L, Kock KH, Inukai S, Siggers T, Shokri L, Gordân R, Sahni N, Cotsapas C, Hao T, Yi S, Kellis M, Daly MJ, Vidal M, Hill DE, Bulyk ML. Barrera LA, et al. Among authors: kock kh. Science. 2016 Mar 25;351(6280):1450-1454. doi: 10.1126/science.aad2257. Epub 2016 Mar 24. Science. 2016. PMID: 27013732 Free PMC article.
HMGB1 binds to the rs7903146 locus in TCF7L2 in human pancreatic islets.
Zhou Y, Oskolkov N, Shcherbina L, Ratti J, Kock KH, Su J, Martin B, Oskolkova MZ, Göransson O, Bacon J, Li W, Bucciarelli S, Cilio C, Brazma A, Thatcher B, Rung J, Wierup N, Renström E, Groop L, Hansson O. Zhou Y, et al. Among authors: kock kh. Mol Cell Endocrinol. 2016 Jul 15;430:138-45. doi: 10.1016/j.mce.2016.01.027. Epub 2016 Feb 1. Mol Cell Endocrinol. 2016. PMID: 26845344