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Page 1
Perspectives on Codebook: sequence specificity of uncharacterized human transcription factors.
Jolma A, Laverty KU, Fathi A, Yang AWH, Yellan I, Vorontsov IE, Inukai S, Kribelbauer-Swietek JF, Gralak AJ, Razavi R, Albu M, Brechalov A, Patel ZM, Nozdrin V, Meshcheryakov G, Kozin I, Abramov S, Boytsov A; Codebook Consortium; Fornes O, Makeev VJ, Grau J, Grosse I, Bucher P, Deplancke B, Kulakovskiy IV, Hughes TR. Jolma A, et al. Among authors: vorontsov ie. bioRxiv [Preprint]. 2024 Nov 12:2024.11.11.622097. doi: 10.1101/2024.11.11.622097. bioRxiv. 2024. PMID: 39605729 Free PMC article. Preprint.
Extensive binding of uncharacterized human transcription factors to genomic dark matter.
Razavi R, Fathi A, Yellan I, Brechalov A, Laverty KU, Jolma A, Hernandez-Corchado A, Zheng H, Yang AWH, Albu M, Barazandeh M, Hu C, Vorontsov IE, Patel ZM; Codebook Consortium; Kulakovskiy IV, Bucher P, Morris Q, Najafabadi HS, Hughes TR. Razavi R, et al. Among authors: vorontsov ie. bioRxiv [Preprint]. 2024 Nov 12:2024.11.11.622123. doi: 10.1101/2024.11.11.622123. bioRxiv. 2024. PMID: 39605320 Free PMC article. Preprint.
Cross-platform DNA motif discovery and benchmarking to explore binding specificities of poorly studied human transcription factors.
Vorontsov IE, Kozin I, Abramov S, Boytsov A, Jolma A, Albu M, Ambrosini G, Faltejskova K, Gralak AJ, Gryzunov N, Inukai S, Kolmykov S, Kravchenko P, Kribelbauer-Swietek JF, Laverty KU, Nozdrin V, Patel ZM, Penzar D, Plescher ML, Pour SE, Razavi R, Yang AWH, Yevshin I, Zinkevich A, Weirauch MT, Bucher P, Deplancke B, Fornes O, Grau J, Grosse I, Kolpakov FA; Codebook/GRECO-BIT Consortium; Makeev VJ, Hughes TR, Kulakovskiy IV. Vorontsov IE, et al. bioRxiv [Preprint]. 2024 Nov 13:2024.11.11.619379. doi: 10.1101/2024.11.11.619379. bioRxiv. 2024. PMID: 39605530 Free PMC article. Preprint.
HOCOMOCO in 2024: a rebuild of the curated collection of binding models for human and mouse transcription factors.
Vorontsov IE, Eliseeva IA, Zinkevich A, Nikonov M, Abramov S, Boytsov A, Kamenets V, Kasianova A, Kolmykov S, Yevshin IS, Favorov A, Medvedeva YA, Jolma A, Kolpakov F, Makeev VJ, Kulakovskiy IV. Vorontsov IE, et al. Nucleic Acids Res. 2024 Jan 5;52(D1):D154-D163. doi: 10.1093/nar/gkad1077. Nucleic Acids Res. 2024. PMID: 37971293 Free PMC article.
Landscape of allele-specific transcription factor binding in the human genome.
Abramov S, Boytsov A, Bykova D, Penzar DD, Yevshin I, Kolmykov SK, Fridman MV, Favorov AV, Vorontsov IE, Baulin E, Kolpakov F, Makeev VJ, Kulakovskiy IV. Abramov S, et al. Among authors: vorontsov ie. Nat Commun. 2021 May 12;12(1):2751. doi: 10.1038/s41467-021-23007-0. Nat Commun. 2021. PMID: 33980847 Free PMC article.
38 results