Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells: An integrative approach using high-throughput datasets

Autor: Fatin N. Zainul Abidin, David R. Westhead, Salam A. Assi, Rebecca Hannah, Constanze Bonifer, Debbie K. Goode, Nadine Obier, Georges Lacaud, M. S. Vijayabaskar, Amber M L Emmett, Nisar A. Shar, Monika Lichtinger, Valerie Kouskoff, Berthold Göttgens, Michael Lie-A-Ling

Publikováno v: PLoS Computational Biology
PLoS Computational Biology, Vol 15, Iss 11, p e1007337 (2019)
Vijayabaskar, M S, Goode, D K, Obier, N, Lichtinger, M, Emmett, A M L, Abidin, F N Z, Shar, N, Hannah, R, Assi, S A, Lie-A-Ling, M, Gottgens, B, Lacaud, G, Kouskoff, V, Bonifer, C & Westhead, D R 2019, ' Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells : An integrative approach using high-throughput datasets ', PLoS computational biology, vol. 15, no. 11, pp. e1007337 . https://doi.org/10.1371/journal.pcbi.1007337

Gene expression governs cell fate, and is regulated via a complex interplay of transcription factors and molecules that change chromatin structure. Advances in sequencing-based assays have enabled investigation of these processes genome-wide, leading

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ad63bce7b85c00e7164b22b42317509e
http://europepmc.org/articles/PMC6855567

H3K9 and H3K14 acetylation co-occur at many gene regulatory elements, while H3K14ac marks a subset of inactive inducible promoters in mouse embryonic stem cells

Autor: Karmodiya, K., Krebs, A. R., Oulad-Abdelghani, M., Kimura, Hiroshi, Tora, L.

Publikováno v: BMC Genomics
BMC Genomics, BioMed Central, 2012, 13 (1), pp.424. ⟨10.1186/1471-2164-13-424⟩
BMC Genomics, Vol 13, Iss 1, p 424 (2012)
BMC Genomics, 2012, 13 (1), pp.424. ⟨10.1186/1471-2164-13-424⟩

Background Transcription regulation in pluripotent embryonic stem (ES) cells is a complex process that involves multitude of regulatory layers, one of which is post-translational modification of histones. Acetylation of specific lysine residues of hi

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7772e721262c55a75e69b5b07c94b968
https://doi.org/10.1186/1471-2164-13-424

Identification of a novel cis-regulatory element for UV-B-induced transcription in Arabidopsis

Autor: Agnieszka Stec, Balázs Fehér, Giorgio Morelli, Geza Dallmann, Attila Oravecz, Andrea Ciolfi, Judit Safrany, Zoltán Máté, Ferenc Nagy, Roman Ulm, Veronika Haasz

Publikováno v: Plant Journal, Vol. 54, No 3 (2008) pp. 402-414

Ultraviolet-B light (UV-B) regulates the expression of genes in a wavelength- and fluence rate-dependent fashion. A signaling pathway consisting of CONSTITUTIVE PHOTOMORPHOGENESIS 1 (COP1) and UV RESISTANCE LOCUS 8 (UVR 8) mediates responsiveness to

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2178fe66076218dc0cb379354e2ab92f
https://archive-ouverte.unige.ch/unige:19331

Predicting transcription factor binding sites using local over-representation and comparative genomics

Autor: Matthieu Defrance, Hélène Touzet

Publikováno v: BMC Bioinformatics
BMC bioinformatics, 7
BMC Bioinformatics, Vol 7, Iss 1, p 396 (2006)

Identifying cis-regulatory elements is crucial to understanding gene expression, which highlights the importance of the computational detection of overrepresented transcription factor binding sites (TFBSs) in coexpressed or coregulated genes. However

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7edd8b0b2be08356af8a74076568b6ac
http://europepmc.org/articles/PMC1570149