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Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements.
Baranasic D, Hörtenhuber M, Balwierz PJ, Zehnder T, Mukarram AK, Nepal C, Várnai C, Hadzhiev Y, Jimenez-Gonzalez A, Li N, Wragg J, D'Orazio FM, Relic D, Pachkov M, Díaz N, Hernández-Rodríguez B, Chen Z, Stoiber M, Dong M, Stevens I, Ross SE, Eagle A, Martin R, Obasaju O, Rastegar S, McGarvey AC, Kopp W, Chambers E, Wang D, Kim HR, Acemel RD, Naranjo S, Łapiński M, Chong V, Mathavan S, Peers B, Sauka-Spengler T, Vingron M, Carninci P, Ohler U, Lacadie SA, Burgess SM, Winata C, van Eeden F, Vaquerizas JM, Gómez-Skarmeta JL, Onichtchouk D, Brown BJ, Bogdanovic O, van Nimwegen E, Westerfield M, Wardle FC, Daub CO, Lenhard B, Müller F. Baranasic D, et al. Among authors: vaquerizas jm. Nat Genet. 2022 Jul;54(7):1037-1050. doi: 10.1038/s41588-022-01089-w. Epub 2022 Jul 4. Nat Genet. 2022. PMID: 35789323 Free PMC article.
TADtool: visual parameter identification for TAD-calling algorithms.
Kruse K, Hug CB, Hernández-Rodríguez B, Vaquerizas JM. Kruse K, et al. Among authors: vaquerizas jm. Bioinformatics. 2016 Oct 15;32(20):3190-3192. doi: 10.1093/bioinformatics/btw368. Epub 2016 Jun 17. Bioinformatics. 2016. PMID: 27318199 Free PMC article.
A molecular roadmap for the emergence of early-embryonic-like cells in culture.
Rodriguez-Terrones D, Gaume X, Ishiuchi T, Weiss A, Kopp A, Kruse K, Penning A, Vaquerizas JM, Brino L, Torres-Padilla ME. Rodriguez-Terrones D, et al. Among authors: vaquerizas jm. Nat Genet. 2018 Jan;50(1):106-119. doi: 10.1038/s41588-017-0016-5. Epub 2017 Dec 18. Nat Genet. 2018. PMID: 29255263 Free PMC article.
Cohesin Disrupts Polycomb-Dependent Chromosome Interactions in Embryonic Stem Cells.
Rhodes JDP, Feldmann A, Hernández-Rodríguez B, Díaz N, Brown JM, Fursova NA, Blackledge NP, Prathapan P, Dobrinic P, Huseyin MK, Szczurek A, Kruse K, Nasmyth KA, Buckle VJ, Vaquerizas JM, Klose RJ. Rhodes JDP, et al. Among authors: vaquerizas jm. Cell Rep. 2020 Jan 21;30(3):820-835.e10. doi: 10.1016/j.celrep.2019.12.057. Cell Rep. 2020. PMID: 31968256 Free PMC article.
Germ cell differentiation requires Tdrd7-dependent chromatin and transcriptome reprogramming marked by germ plasm relocalization.
D'Orazio FM, Balwierz PJ, González AJ, Guo Y, Hernández-Rodríguez B, Wheatley L, Jasiulewicz A, Hadzhiev Y, Vaquerizas JM, Cairns B, Lenhard B, Müller F. D'Orazio FM, et al. Among authors: vaquerizas jm. Dev Cell. 2021 Mar 8;56(5):641-656.e5. doi: 10.1016/j.devcel.2021.02.007. Epub 2021 Mar 1. Dev Cell. 2021. PMID: 33651978 Free PMC article.
69 results