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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: ohler u. 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.
JAMM: a peak finder for joint analysis of NGS replicates.
Ibrahim MM, Lacadie SA, Ohler U. Ibrahim MM, et al. Among authors: ohler u. Bioinformatics. 2015 Jan 1;31(1):48-55. doi: 10.1093/bioinformatics/btu568. Epub 2014 Sep 15. Bioinformatics. 2015. PMID: 25223640
Human promoters are intrinsically directional.
Duttke SHC, Lacadie SA, Ibrahim MM, Glass CK, Corcoran DL, Benner C, Heinz S, Kadonaga JT, Ohler U. Duttke SHC, et al. Among authors: ohler u. Mol Cell. 2015 Feb 19;57(4):674-684. doi: 10.1016/j.molcel.2014.12.029. Epub 2015 Jan 29. Mol Cell. 2015. PMID: 25639469 Free PMC article.
Redundant regulation.
Lacadie SA, Ohler U. Lacadie SA, et al. Among authors: ohler u. Nat Ecol Evol. 2018 Mar;2(3):418-419. doi: 10.1038/s41559-018-0479-5. Nat Ecol Evol. 2018. PMID: 29379186 No abstract available.
Deep learning for genomics using Janggu.
Kopp W, Monti R, Tamburrini A, Ohler U, Akalin A. Kopp W, et al. Among authors: ohler u. Nat Commun. 2020 Jul 13;11(1):3488. doi: 10.1038/s41467-020-17155-y. Nat Commun. 2020. PMID: 32661261 Free PMC article.
Spatio-temporal mRNA tracking in the early zebrafish embryo.
Holler K, Neuschulz A, Drewe-Boß P, Mintcheva J, Spanjaard B, Arsiè R, Ohler U, Landthaler M, Junker JP. Holler K, et al. Among authors: ohler u. Nat Commun. 2021 Jun 7;12(1):3358. doi: 10.1038/s41467-021-23834-1. Nat Commun. 2021. PMID: 34099733 Free PMC article.
146 results