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Alexander K. Shalek, Ph.D. - Publications

Affiliations: 
Harvard University, Cambridge, MA, United States 
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33 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
2020 Kazer SW, Aicher TP, Muema DM, Carroll SL, Ordovas-Montanes J, Miao VN, Tu AA, Ziegler CGK, Nyquist SK, Wong EB, Ismail N, Dong M, Moodley A, Berger B, Love JC, ... ... Shalek AK, et al. Integrated single-cell analysis of multicellular immune dynamics during hyperacute HIV-1 infection. Nature Medicine. PMID 32251406 DOI: 10.1038/S41591-020-0799-2  0.353
2020 Winter PS, Raghavan S, Navia AW, Williams H, Galvez-Reyes J, Kalekar R, Borah A, DenAdel A, Raghavan M, Lowder K, Mulugeta N, Wang J, Reilly E, Brais L, Crawford L, ... ... Shalek AK, et al. Abstract PR02: Matched metastatic pancreatic ductal adenocarcinoma biopsies and organoid models reveal tumor cell transcriptional plasticity and subtype-specific microenvironmental crosstalk Cancer Research. 80. DOI: 10.1158/1538-7445.Camodels2020-Pr02  0.309
2019 Tu AA, Gierahn TM, Monian B, Morgan DM, Mehta NK, Ruiter B, Shreffler WG, Shalek AK, Love JC. TCR sequencing paired with massively parallel 3' RNA-seq reveals clonotypic T cell signatures. Nature Immunology. 20: 1692-1699. PMID 31745340 DOI: 10.1038/S41590-019-0544-5  0.324
2019 Smillie CS, Biton M, Ordovas-Montanes J, Sullivan KM, Burgin G, Graham DB, Herbst RH, Rogel N, Slyper M, Waldman J, Sud M, Andrews E, Velonias G, Haber AL, Jagadeesh K, ... ... Shalek AK, et al. Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis. Cell. 178: 714-730.e22. PMID 31348891 DOI: 10.1016/J.Cell.2019.06.029  0.325
2019 van Galen P, Hovestadt V, Wadsworth Ii MH, Hughes TK, Griffin GK, Battaglia S, Verga JA, Stephansky J, Pastika TJ, Lombardi Story J, Pinkus GS, Pozdnyakova O, Galinsky I, Stone RM, Graubert TA, ... Shalek AK, et al. Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity. Cell. PMID 30827681 DOI: 10.1016/J.Cell.2019.01.031  0.365
2019 Jerby L, Shah P, Cuoco MS, Rodman C, Su M, Melms JM, Leeson R, Kanodia A, Mei S, Lin J, Wang S, Rabasha B, Liu D, Zhang G, Margolais C, ... ... Shalek AK, et al. Abstract A082: Single-cell RNA-sequencing of metastatic melanoma identifies a cancer cell-intrinsic program associated with immune checkpoint inhibitor resistance Cancer Immunology Research. 7. DOI: 10.1158/2326-6074.Cricimteatiaacr18-A082  0.351
2018 Kimmerling RJ, Prakadan SM, Gupta AJ, Calistri NL, Stevens MM, Olcum S, Cermak N, Drake RS, Pelton K, De Smet F, Ligon KL, Shalek AK, Manalis SR. Linking single-cell measurements of mass, growth rate, and gene expression. Genome Biology. 19: 207. PMID 30482222 DOI: 10.1186/S13059-018-1576-0  0.312
2018 Biton M, Haber AL, Rogel N, Burgin G, Beyaz S, Schnell A, Ashenberg O, Su CW, Smillie C, Shekhar K, Chen Z, Wu C, Ordovas-Montanes J, Alvarez D, Herbst RH, ... ... Shalek AK, et al. T Helper Cell Cytokines Modulate Intestinal Stem Cell Renewal and Differentiation. Cell. PMID 30392957 DOI: 10.1016/J.Cell.2018.10.008  0.34
2018 Jerby-Arnon L, Shah P, Cuoco MS, Rodman C, Su MJ, Melms JC, Leeson R, Kanodia A, Mei S, Lin JR, Wang S, Rabasha B, Liu D, Zhang G, Margolais C, ... ... Shalek AK, et al. A Cancer Cell Program Promotes T Cell Exclusion and Resistance to Checkpoint Blockade. Cell. 175: 984-997.e24. PMID 30388455 DOI: 10.1016/J.Cell.2018.09.006  0.331
2018 Ordovas-Montanes J, Dwyer DF, Nyquist SK, Buchheit KM, Vukovic M, Deb C, Wadsworth MH, Hughes TK, Kazer SW, Yoshimoto E, Cahill KN, Bhattacharyya N, Katz HR, Berger B, Laidlaw TM, ... ... Shalek AK, et al. Allergic inflammatory memory in human respiratory epithelial progenitor cells. Nature. PMID 30135581 DOI: 10.1038/S41586-018-0449-8  0.333
2018 Shalek AK. Size no longer matters. Science Translational Medicine. 8: 365ec185. PMID 27856794 DOI: 10.1126/Scitranslmed.Aal0073  0.306
2017 Regev A, Teichmann SA, Lander ES, Amit I, Benoist C, Birney E, Bodenmiller B, Campbell PJ, Carninci P, Clatworthy M, Clevers H, Deplancke B, Dunham I, Eberwine J, Eils R, ... ... Shalek AK, et al. Science Forum: The Human Cell Atlas. Elife. 6. PMID 29206104 DOI: 10.7554/Elife.27041  0.312
2017 Gierahn TM, Wadsworth MH, Hughes TK, Bryson BD, Butler A, Satija R, Fortune S, Love JC, Shalek AK. Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput. Nature Methods. PMID 28192419 DOI: 10.1038/Nmeth.4179  0.308
2017 Miller BC, Wadsworth MH, Bi K, Hughes TK, Sharpe AH, Shalek AK, Haining WN. Abstract PR11: Dissecting mechanisms of PD-1 blockade with single-cell RNA-sequencing Cancer Immunology Research. 5. DOI: 10.1158/2326-6074.Tumimm16-Pr11  0.312
2017 Izar B, Stover E, Tirosh I, Rotem A, Shah P, Rodman C, Prakadan S, Wadsworth M, Su M, Leeson R, Palakurthi S, Liu J, Matulonis U, Shalek A, Rozenblatt-Rosen O, et al. Abstract AP19: SINGLE–CELL RNA–SEQUENCING OF PATIENT–DERIVED OVARIAN CANCER CELLS AND PATIENT–DERIVED XENOGRAFT MODELS Clinical Cancer Research. 23. DOI: 10.1158/1557-3265.Ovcasymp16-Ap19  0.354
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  0.342
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  0.352
2016 Izar B, Tirsh I, Prakadan S, Wadsworth M, Treacy D, Trombetta J, Rotem A, Lian C, Murphy G, Fallahi-Sichani M, Dutton-Regester K, Lin J, Jane-Valbuena J, Rozenblatt-Rosen O, Yoon C, ... Shalek A, et al. Abstract 4380: Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-sequencing Cancer Research. 76: 4380-4380. DOI: 10.1158/1538-7445.Am2016-4380  0.372
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  0.502
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  0.341
2015 Tirosh I, Izar B, Prakadan SM, Wadsworth MH, Treacy D, Trombetta JJ, Lu D, Rotem A, Lian C, Murphy G, Cohen O, Allen Ev, Bertagnolli M, Genshaft A, Hughes TK, ... ... Shalek AK, et al. Abstract CN07-04: Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq Molecular Cancer Therapeutics. 14. DOI: 10.1158/1535-7163.Targ-15-Cn07-04  0.344
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  0.34
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  0.521
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  0.407
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  0.519
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  0.409
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  0.478
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  0.42
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  0.691
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  0.622
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  0.656
2011 Wang L, Shalek AK, Gaublomme J, Yosef N, Brown JR, Neuberg D, Hacohen N, Park H, Wu CJ. Sensitivity to Wnt Pathway Inhibition in CLL Is Associated with Specific Gene Expression Signatures Blood. 118: 801-801. DOI: 10.1182/Blood.V118.21.801.801  0.355
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  0.675
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