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Alexander K. Shalek, Ph.D. - Publications

Affiliations: 
Harvard University, Cambridge, MA, United States 
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28 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Tirosh I, Izar B, Prakadan SM, Wadsworth MH, Treacy D, Trombetta JJ, Rotem A, Rodman C, Lian C, Murphy G, Fallahi-Sichani M, Dutton-Regester K, Lin JR, Cohen O, Shah P, ... ... Shalek AK, et al. Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq. Science (New York, N.Y.). 352: 189-196. PMID 27124452 DOI: 10.1126/science.aad0501  0.76
2016 Wong AS, Choi GC, Cui CH, Pregernig G, Milani P, Adam M, Perli SD, Kazer SW, Gaillard A, Hermann M, Shalek AK, Fraenkel E, Lu TK. Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM. Proceedings of the National Academy of Sciences of the United States of America. PMID 26864203 DOI: 10.1073/pnas.1517883113  0.76
2016 Kløverpris HN, Kazer SW, Mjösberg J, Mabuka JM, Wellmann A, Ndhlovu Z, Yadon MC, Nhamoyebonde S, Muenchhoff M, Simoni Y, Andersson F, Kuhn W, Garrett N, Burgers WA, Kamya P, ... ... Shalek AK, et al. Innate Lymphoid Cells Are Depleted Irreversibly during Acute HIV-1 Infection in the Absence of Viral Suppression. Immunity. PMID 26850658 DOI: 10.1016/j.immuni.2016.01.006  0.76
2016 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. A microfluidic platform enabling single-cell RNA-seq of multigenerational lineages. Nature Communications. 7: 10220. PMID 26732280 DOI: 10.1038/ncomms10220  0.76
2015 Finak G, McDavid A, Yajima M, Deng J, Gersuk V, Shalek AK, Slichter CK, Miller HW, McElrath MJ, Prlic M, Linsley PS, Gottardo R. MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data. Genome Biology. 16: 278. PMID 26653891 DOI: 10.1186/s13059-015-0844-5  0.76
2015 Gaublomme JT, Yosef N, Lee Y, Gertner RS, Yang LV, Wu C, Pandolfi PP, Mak T, Satija R, Shalek AK, Kuchroo VK, Park H, Regev A. Single-Cell Genomics Unveils Critical Regulators of Th17 Cell Pathogenicity. Cell. PMID 26607794 DOI: 10.1016/j.cell.2015.11.009  0.76
2015 Avraham R, Haseley N, Brown D, Penaranda C, Jijon HB, Trombetta JJ, Satija R, Shalek AK, Xavier RJ, Regev A, Hung DT. Pathogen Cell-to-Cell Variability Drives Heterogeneity in Host Immune Responses. Cell. 162: 1309-21. PMID 26343579 DOI: 10.1016/j.cell.2015.08.027  0.76
2015 Wadsworth MH, Hughes TK, Shalek AK. Marrying microfluidics and microwells for parallel, high-throughput single-cell genomics. Genome Biology. 16: 129. PMID 26087845 DOI: 10.1186/s13059-015-0695-0  0.76
2015 Shalek AK, Satija R. MERFISHing for spatial context. Trends in Immunology. 36: 390-1. PMID 26013647 DOI: 10.1016/j.it.2015.05.002  0.76
2015 Macosko EZ, Basu A, Satija R, Nemesh J, Shekhar K, Goldman M, Tirosh I, Bialas AR, Kamitaki N, Martersteck EM, Trombetta JJ, Weitz DA, Sanes JR, Shalek AK, Regev A, et al. Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets. Cell. 161: 1202-14. PMID 26000488 DOI: 10.1016/j.cell.2015.05.002  0.76
2014 Kumar RM, Cahan P, Shalek AK, Satija R, DaleyKeyser AJ, Li H, Zhang J, Pardee K, Gennert D, Trombetta JJ, Ferrante TC, Regev A, Daley GQ, Collins JJ. Deconstructing transcriptional heterogeneity in pluripotent stem cells. Nature. 516: 56-61. PMID 25471879 DOI: 10.1038/nature13920  0.76
2014 Trombetta JJ, Gennert D, Lu D, Satija R, Shalek AK, Regev A. Preparation of Single-Cell RNA-Seq Libraries for Next Generation Sequencing. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. 107: 4.22.1-4.22.17. PMID 24984854 DOI: 10.1002/0471142727.mb0422s107  0.76
2014 Patel AP, Tirosh I, Trombetta JJ, Shalek AK, Gillespie SM, Wakimoto H, Cahill DP, Nahed BV, Curry WT, Martuza RL, Louis DN, Rozenblatt-Rosen O, Suvà ML, Regev A, Bernstein BE. Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma. Science (New York, N.Y.). 344: 1396-401. PMID 24925914 DOI: 10.1126/science.1254257  0.76
2014 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, et al. Single-cell RNA-seq reveals dynamic paracrine control of cellular variation. Nature. 510: 363-9. PMID 24919153 DOI: 10.1038/nature13437  0.76
2014 Wang L, Shalek AK, Lawrence M, Ding R, Gaublomme JT, Pochet N, Stojanov P, Sougnez C, Shukla SA, Stevenson KE, Zhang W, Wong J, Sievers QL, MacDonald BT, Vartanov AR, et al. Somatic mutation as a mechanism of Wnt/β-catenin pathway activation in CLL. Blood. 124: 1089-98. PMID 24778153 DOI: 10.1182/blood-2014-01-552067  0.76
2014 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, et al. Whole-exome sequencing of circulating tumor cells provides a window into metastatic prostate cancer. Nature Biotechnology. 32: 479-84. PMID 24752078 DOI: 10.1038/nbt.2892  0.76
2014 Satija R, Shalek AK. Heterogeneity in immune responses: from populations to single cells. Trends in Immunology. 35: 219-29. PMID 24746883 DOI: 10.1016/j.it.2014.03.004  0.76
2014 Suvà ML, Rheinbay E, Gillespie SM, Patel AP, Wakimoto H, Rabkin SD, Riggi N, Chi AS, Cahill DP, Nahed BV, Curry WT, Martuza RL, Rivera MN, Rossetti N, Kasif S, ... ... Shalek AK, et al. Reconstructing and reprogramming the tumor-propagating potential of glioblastoma stem-like cells. Cell. 157: 580-94. PMID 24726434 DOI: 10.1016/j.cell.2014.02.030  0.76
2013 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, et al. Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells. Nature. 498: 236-40. PMID 23685454 DOI: 10.1038/nature12172  0.76
2013 Gifford CA, Ziller MJ, Gu H, Trapnell C, Donaghey J, Tsankov A, Shalek AK, Kelley DR, Shishkin AA, Issner R, Zhang X, Coyne M, Fostel JL, Holmes L, Meldrim J, et al. Transcriptional and epigenetic dynamics during specification of human embryonic stem cells. Cell. 153: 1149-63. PMID 23664763 DOI: 10.1016/j.cell.2013.04.037  0.76
2013 Gat-Viks I, Chevrier N, Wilentzik R, Eisenhaure T, Raychowdhury R, Steuerman Y, Shalek AK, Hacohen N, Amit I, Regev A. Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli. Nature Biotechnology. 31: 342-9. PMID 23503680 DOI: 10.1038/nbt.2519  0.76
2013 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, et al. Dynamic regulatory network controlling TH17 cell differentiation. Nature. 496: 461-8. PMID 23467089 DOI: 10.1038/nature11981  0.76
2013 Na YR, Kim SY, Gaublomme JT, Shalek AK, Jorgolli M, Park H, Yang EG. Probing enzymatic activity inside living cells using a nanowire-cell "sandwich" assay. Nano Letters. 13: 153-8. PMID 23244056 DOI: 10.1021/nl3037068  0.76
2012 Shalek AK, Gaublomme JT, Wang L, Yosef N, Chevrier N, Andersen MS, Robinson JT, Pochet N, Neuberg D, Gertner RS, Amit I, Brown JR, Hacohen N, Regev A, Wu CJ, et al. Nanowire-mediated delivery enables functional interrogation of primary immune cells: application to the analysis of chronic lymphocytic leukemia. Nano Letters. 12: 6498-504. PMID 23190424 DOI: 10.1021/nl3042917  0.76
2012 Robinson JT, Jorgolli M, Shalek AK, Yoon MH, Gertner RS, Park H. Vertical nanowire electrode arrays as a scalable platform for intracellular interfacing to neuronal circuits. Nature Nanotechnology. 7: 180-4. PMID 22231664 DOI: 10.1038/nnano.2011.249  0.76
2011 Chevrier N, Mertins P, Artyomov MN, Shalek AK, Iannacone M, Ciaccio MF, Gat-Viks I, Tonti E, DeGrace MM, Clauser KR, Garber M, Eisenhaure TM, Yosef N, Robinson J, Sutton A, et al. Systematic discovery of TLR signaling components delineates viral-sensing circuits. Cell. 147: 853-67. PMID 22078882 DOI: 10.1016/j.cell.2011.10.022  0.76
2010 Shalek AK, Robinson JT, Karp ES, Lee JS, Ahn DR, Yoon MH, Sutton A, Jorgolli M, Gertner RS, Gujral TS, MacBeath G, Yang EG, Park H. Vertical silicon nanowires as a universal platform for delivering biomolecules into living cells. Proceedings of the National Academy of Sciences of the United States of America. 107: 1870-5. PMID 20080678 DOI: 10.1073/pnas.0909350107  0.76
2005 Chen L, Cherniavskaya O, Shalek A, Brus LE. Photoinduced interfacial charging and "explosion" of monolayer Pentacene Islands Nano Letters. 5: 2241-2245. DOI: 10.1021/nl051567m  0.76
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