Safi A - Search Results

1

Transcriptome and epigenome landscape of human cortical development modeled in organoids.

Amiri A, Coppola G, Scuderi S, Wu F, Roychowdhury T, Liu F, Pochareddy S, Shin Y, Safi A, Song L, Zhu Y, Sousa AMM; PsychENCODE Consortium; Gerstein M, Crawford GE, Sestan N, Abyzov A, Vaccarino FM. Amiri A, et al. Among authors: safi a. Science. 2018 Dec 14;362(6420):eaat6720. doi: 10.1126/science.aat6720. Science. 2018. PMID: 30545853 Free PMC article.

2

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions.

Sheffield NC, Thurman RE, Song L, Safi A, Stamatoyannopoulos JA, Lenhard B, Crawford GE, Furey TS. Sheffield NC, et al. Among authors: safi a. Genome Res. 2013 May;23(5):777-88. doi: 10.1101/gr.152140.112. Epub 2013 Mar 12. Genome Res. 2013. PMID: 23482648 Free PMC article.

3

Distinct properties of cell-type-specific and shared transcription factor binding sites.

Gertz J, Savic D, Varley KE, Partridge EC, Safi A, Jain P, Cooper GM, Reddy TE, Crawford GE, Myers RM. Gertz J, et al. Among authors: safi a. Mol Cell. 2013 Oct 10;52(1):25-36. doi: 10.1016/j.molcel.2013.08.037. Epub 2013 Sep 26. Mol Cell. 2013. PMID: 24076218 Free PMC article.

4

Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation.

Su D, Wang X, Campbell MR, Song L, Safi A, Crawford GE, Bell DA. Su D, et al. Among authors: safi a. PLoS Genet. 2015 Jan 8;11(1):e1004885. doi: 10.1371/journal.pgen.1004885. eCollection 2015 Jan. PLoS Genet. 2015. PMID: 25569532 Free PMC article.

5

Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum.

Frank CL, Liu F, Wijayatunge R, Song L, Biegler MT, Yang MG, Vockley CM, Safi A, Gersbach CA, Crawford GE, West AE. Frank CL, et al. Among authors: safi a. Nat Neurosci. 2015 May;18(5):647-56. doi: 10.1038/nn.3995. Epub 2015 Apr 6. Nat Neurosci. 2015. PMID: 25849986 Free PMC article.

6

Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators.

Polstein LR, Perez-Pinera P, Kocak DD, Vockley CM, Bledsoe P, Song L, Safi A, Crawford GE, Reddy TE, Gersbach CA. Polstein LR, et al. Among authors: safi a. Genome Res. 2015 Aug;25(8):1158-69. doi: 10.1101/gr.179044.114. Epub 2015 May 29. Genome Res. 2015. PMID: 26025803 Free PMC article.

7

Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements.

Thakore PI, D'Ippolito AM, Song L, Safi A, Shivakumar NK, Kabadi AM, Reddy TE, Crawford GE, Gersbach CA. Thakore PI, et al. Among authors: safi a. Nat Methods. 2015 Dec;12(12):1143-9. doi: 10.1038/nmeth.3630. Epub 2015 Oct 26. Nat Methods. 2015. PMID: 26501517 Free PMC article.

8

Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome.

Vockley CM, D'Ippolito AM, McDowell IC, Majoros WH, Safi A, Song L, Crawford GE, Reddy TE. Vockley CM, et al. Among authors: safi a. Cell. 2016 Aug 25;166(5):1269-1281.e19. doi: 10.1016/j.cell.2016.07.049. Cell. 2016. PMID: 27565349 Free PMC article.

9

CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome.

Klann TS, Black JB, Chellappan M, Safi A, Song L, Hilton IB, Crawford GE, Reddy TE, Gersbach CA. Klann TS, et al. Among authors: safi a. Nat Biotechnol. 2017 Jun;35(6):561-568. doi: 10.1038/nbt.3853. Epub 2017 Apr 3. Nat Biotechnol. 2017. PMID: 28369033 Free PMC article.

10

Comparative Serum Challenges Show Divergent Patterns of Gene Expression and Open Chromatin in Human and Chimpanzee.

Pizzollo J, Nielsen WJ, Shibata Y, Safi A, Crawford GE, Wray GA, Babbitt CC. Pizzollo J, et al. Among authors: safi a. Genome Biol Evol. 2018 Mar 1;10(3):826-839. doi: 10.1093/gbe/evy041. Genome Biol Evol. 2018. PMID: 29608722 Free PMC article.

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