Skok J - Search Results

1

EpiMethylTag: simultaneous detection of ATAC-seq or ChIP-seq signals with DNA methylation.

Lhoumaud P, Sethia G, Izzo F, Sakellaropoulos T, Snetkova V, Vidal S, Badri S, Cornwell M, Di Giammartino DC, Kim KT, Apostolou E, Stadtfeld M, Landau DA, Skok J. Lhoumaud P, et al. Among authors: skok j. Genome Biol. 2019 Nov 21;20(1):248. doi: 10.1186/s13059-019-1853-6. Genome Biol. 2019. PMID: 31752933 Free PMC article.

2

4C-ker: A Method to Reproducibly Identify Genome-Wide Interactions Captured by 4C-Seq Experiments.

Raviram R, Rocha PP, Müller CL, Miraldi ER, Badri S, Fu Y, Swanzey E, Proudhon C, Snetkova V, Bonneau R, Skok JA. Raviram R, et al. PLoS Comput Biol. 2016 Mar 3;12(3):e1004780. doi: 10.1371/journal.pcbi.1004780. eCollection 2016 Mar. PLoS Comput Biol. 2016. PMID: 26938081 Free PMC article.

3

Active and Inactive Enhancers Cooperate to Exert Localized and Long-Range Control of Gene Regulation.

Proudhon C, Snetkova V, Raviram R, Lobry C, Badri S, Jiang T, Hao B, Trimarchi T, Kluger Y, Aifantis I, Bonneau R, Skok JA. Proudhon C, et al. Cell Rep. 2016 Jun 7;15(10):2159-2169. doi: 10.1016/j.celrep.2016.04.087. Epub 2016 May 26. Cell Rep. 2016. PMID: 27239026 Free PMC article.

4

Identification of multi-loci hubs from 4C-seq demonstrates the functional importance of simultaneous interactions.

Jiang T, Raviram R, Snetkova V, Rocha PP, Proudhon C, Badri S, Bonneau R, Skok JA, Kluger Y. Jiang T, et al. Nucleic Acids Res. 2016 Oct 14;44(18):8714-8725. doi: 10.1093/nar/gkw568. Epub 2016 Jul 20. Nucleic Acids Res. 2016. PMID: 27439714 Free PMC article.

5

Enhancer talk.

Snetkova V, Skok JA. Snetkova V, et al. Epigenomics. 2018 Apr 1;10(4):483-498. doi: 10.2217/epi-2017-0157. Epub 2018 Mar 27. Epigenomics. 2018. PMID: 29583027 Free PMC article. Review.

6

Analysis of 3D genomic interactions identifies candidate host genes that transposable elements potentially regulate.

Raviram R, Rocha PP, Luo VM, Swanzey E, Miraldi ER, Chuong EB, Feschotte C, Bonneau R, Skok JA. Raviram R, et al. Genome Biol. 2018 Dec 13;19(1):216. doi: 10.1186/s13059-018-1598-7. Genome Biol. 2018. PMID: 30541598 Free PMC article.

7

NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains.

Lhoumaud P, Badri S, Rodriguez-Hernaez J, Sakellaropoulos T, Sethia G, Kloetgen A, Cornwell M, Bhattacharyya S, Ay F, Bonneau R, Tsirigos A, Skok JA. Lhoumaud P, et al. Among authors: skok ja. Nat Commun. 2019 Oct 24;10(1):4843. doi: 10.1038/s41467-019-12811-4. Nat Commun. 2019. PMID: 31649247 Free PMC article.

8

DNA methylation disruption reshapes the hematopoietic differentiation landscape.

Izzo F, Lee SC, Poran A, Chaligne R, Gaiti F, Gross B, Murali RR, Deochand SD, Ang C, Jones PW, Nam AS, Kim KT, Kothen-Hill S, Schulman RC, Ki M, Lhoumaud P, Skok JA, Viny AD, Levine RL, Kenigsberg E, Abdel-Wahab O, Landau DA. Izzo F, et al. Nat Genet. 2020 Apr;52(4):378-387. doi: 10.1038/s41588-020-0595-4. Epub 2020 Mar 23. Nat Genet. 2020. PMID: 32203468 Free PMC article.

9

Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation.

Nishana M, Ha C, Rodriguez-Hernaez J, Ranjbaran A, Chio E, Nora EP, Badri SB, Kloetgen A, Bruneau BG, Tsirigos A, Skok JA. Nishana M, et al. Among authors: skok ja. Genome Biol. 2020 May 11;21(1):108. doi: 10.1186/s13059-020-02024-0. Genome Biol. 2020. PMID: 32393311 Free PMC article.

10

Author Correction: Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation.

Nishana M, Ha C, Rodriguez-Hernaez J, Ranjbaran A, Chio E, Nora EP, Badri SB, Kloetgen A, Bruneau BG, Tsirigos A, Skok JA. Nishana M, et al. Among authors: skok ja. Genome Biol. 2020 Jun 2;21(1):133. doi: 10.1186/s13059-020-02056-6. Genome Biol. 2020. PMID: 32487268 Free PMC article.

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