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CRISPR-DO for genome-wide CRISPR design and optimization.
Ma J, Köster J, Qin Q, Hu S, Li W, Chen C, Cao Q, Wang J, Mei S, Liu Q, Xu H, Liu XS. Ma J, et al. Among authors: hu s. Bioinformatics. 2016 Nov 1;32(21):3336-3338. doi: 10.1093/bioinformatics/btw476. Epub 2016 Jul 10. Bioinformatics. 2016. PMID: 27402906 Free PMC article.
Comparative analysis of metazoan chromatin organization.
Ho JW, Jung YL, Liu T, Alver BH, Lee S, Ikegami K, Sohn KA, Minoda A, Tolstorukov MY, Appert A, Parker SC, Gu T, Kundaje A, Riddle NC, Bishop E, Egelhofer TA, Hu SS, Alekseyenko AA, Rechtsteiner A, Asker D, Belsky JA, Bowman SK, Chen QB, Chen RA, Day DS, Dong Y, Dose AC, Duan X, Epstein CB, Ercan S, Feingold EA, Ferrari F, Garrigues JM, Gehlenborg N, Good PJ, Haseley P, He D, Herrmann M, Hoffman MM, Jeffers TE, Kharchenko PV, Kolasinska-Zwierz P, Kotwaliwale CV, Kumar N, Langley SA, Larschan EN, Latorre I, Libbrecht MW, Lin X, Park R, Pazin MJ, Pham HN, Plachetka A, Qin B, Schwartz YB, Shoresh N, Stempor P, Vielle A, Wang C, Whittle CM, Xue H, Kingston RE, Kim JH, Bernstein BE, Dernburg AF, Pirrotta V, Kuroda MI, Noble WS, Tullius TD, Kellis M, MacAlpine DM, Strome S, Elgin SC, Liu XS, Lieb JD, Ahringer J, Karpen GH, Park PJ. Ho JW, et al. Among authors: hu ss. Nature. 2014 Aug 28;512(7515):449-52. doi: 10.1038/nature13415. Nature. 2014. PMID: 25164756 Free PMC article.
CAM: A quality control pipeline for MNase-seq data.
Hu S, Chen X, Liao J, Chen Y, Zhao C, Zhang Y. Hu S, et al. PLoS One. 2017 Aug 7;12(8):e0182771. doi: 10.1371/journal.pone.0182771. eCollection 2017. PLoS One. 2017. PMID: 28787030 Free PMC article.
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