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Voices in methods development.
Anikeeva P, Boyden E, Brangwynne C, Cissé II, Fiehn O, Fromme P, Gingras AC, Greene CS, Heard E, Hell SW, Hillman E, Jensen GJ, Karchin R, Kiessling LL, Kleinstiver BP, Knight R, Kukura P, Lancaster MA, Loman N, Looger L, Lundberg E, Luo Q, Miyawaki A, Myers EW Jr, Nolan GP, Picotti P, Reik W, Sauer M, Shalek AK, Shendure J, Slavov N, Tanay A, Troyanskaya O, van Valen D, Wang HW, Yi C, Yin P, Zernicka-Goetz M, Zhuang X. Anikeeva P, et al. Among authors: Shalek AK. Nat Methods. 2019 Oct;16(10):945-951. doi: 10.1038/s41592-019-0585-6. Nat Methods. 2019. PMID: 31562479 Free PMC article.
Dynamic regulatory network controlling TH17 cell differentiation.
Yosef N, Shalek AK, Gaublomme JT, Jin H, Lee Y, Awasthi A, Wu C, Karwacz K, Xiao S, Jorgolli M, Gennert D, Satija R, Shakya A, Lu DY, Trombetta JJ, Pillai MR, Ratcliffe PJ, Coleman ML, Bix M, Tantin D, Park H, Kuchroo VK, Regev A. Yosef N, et al. Among authors: Shalek AK. Nature. 2013 Apr 25;496(7446):461-8. doi: 10.1038/nature11981. Epub 2013 Mar 6. Nature. 2013. PMID: 23467089 Free PMC article.
Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli.
Gat-Viks I, Chevrier N, Wilentzik R, Eisenhaure T, Raychowdhury R, Steuerman Y, Shalek AK, Hacohen N, Amit I, Regev A. Gat-Viks I, et al. Among authors: Shalek AK. Nat Biotechnol. 2013 Apr;31(4):342-9. doi: 10.1038/nbt.2519. Epub 2013 Mar 17. Nat Biotechnol. 2013. PMID: 23503680 Free PMC article.
Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells.
Shalek AK, Satija R, Adiconis X, Gertner RS, Gaublomme JT, Raychowdhury R, Schwartz S, Yosef N, Malboeuf C, Lu D, Trombetta JJ, Gennert D, Gnirke A, Goren A, Hacohen N, Levin JZ, Park H, Regev A. Shalek AK, et al. Nature. 2013 Jun 13;498(7453):236-40. doi: 10.1038/nature12172. Epub 2013 May 19. Nature. 2013. PMID: 23685454 Free PMC article.
Whole-exome sequencing of circulating tumor cells provides a window into metastatic prostate cancer.
Lohr JG, Adalsteinsson VA, Cibulskis K, Choudhury AD, Rosenberg M, Cruz-Gordillo P, Francis JM, Zhang CZ, Shalek AK, Satija R, Trombetta JJ, Lu D, Tallapragada N, Tahirova N, Kim S, Blumenstiel B, Sougnez C, Lowe A, Wong B, Auclair D, Van Allen EM, Nakabayashi M, Lis RT, Lee GS, Li T, Chabot MS, Ly A, Taplin ME, Clancy TE, Loda M, Regev A, Meyerson M, Hahn WC, Kantoff PW, Golub TR, Getz G, Boehm JS, Love JC. Lohr JG, et al. Among authors: Shalek AK. Nat Biotechnol. 2014 May;32(5):479-84. doi: 10.1038/nbt.2892. Epub 2014 Apr 20. Nat Biotechnol. 2014. PMID: 24752078 Free PMC article.
Single-cell RNA-seq reveals dynamic paracrine control of cellular variation.
Shalek AK, Satija R, Shuga J, Trombetta JJ, Gennert D, Lu D, Chen P, Gertner RS, Gaublomme JT, Yosef N, Schwartz S, Fowler B, Weaver S, Wang J, Wang X, Ding R, Raychowdhury R, Friedman N, Hacohen N, Park H, May AP, Regev A. Shalek AK, et al. Nature. 2014 Jun 19;510(7505):363-9. doi: 10.1038/nature13437. Epub 2014 Jun 11. Nature. 2014. PMID: 24919153 Free PMC article.
Deconstructing transcriptional heterogeneity in pluripotent stem cells.
Kumar RM, Cahan P, Shalek AK, Satija R, DaleyKeyser A, Li H, Zhang J, Pardee K, Gennert D, Trombetta JJ, Ferrante TC, Regev A, Daley GQ, Collins JJ. Kumar RM, et al. Among authors: Shalek AK. Nature. 2014 Dec 4;516(7529):56-61. doi: 10.1038/nature13920. Nature. 2014. PMID: 25471879 Free PMC article.
A microfluidic platform enabling single-cell RNA-seq of multigenerational lineages.
Kimmerling RJ, Lee Szeto G, Li JW, Genshaft AS, Kazer SW, Payer KR, de Riba Borrajo J, Blainey PC, Irvine DJ, Shalek AK, Manalis SR. Kimmerling RJ, et al. Among authors: Shalek AK. Nat Commun. 2016 Jan 6;7:10220. doi: 10.1038/ncomms10220. Nat Commun. 2016. PMID: 26732280 Free PMC article.
Regulation of X-linked gene expression during early mouse development by Rlim.
Wang F, Shin J, Shea JM, Yu J, Bošković A, Byron M, Zhu X, Shalek AK, Regev A, Lawrence JB, Torres EM, Zhu LJ, Rando OJ, Bach I. Wang F, et al. Among authors: Shalek AK. Elife. 2016 Sep 19;5:e19127. doi: 10.7554/eLife.19127. Elife. 2016. PMID: 27642011 Free PMC article.
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