Alykhan F. Shamji, Ph.D. - Publications

Affiliations: 
Harvard University, Cambridge, MA, United States 
Area:
Chemical biology

54 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
2019 Oberlick EM, Rees MG, Seashore-Ludlow B, Vazquez F, Nelson GM, Dharia NV, Weir BA, Tsherniak A, Ghandi M, Krill-Burger JM, Meyers RM, Wang X, Montgomery P, Root DE, Bieber JM, ... ... Shamji AF, et al. Small-Molecule and CRISPR Screening Converge to Reveal Receptor Tyrosine Kinase Dependencies in Pediatric Rhabdoid Tumors. Cell Reports. 28: 2331-2344.e8. PMID 31461650 DOI: 10.1016/j.celrep.2019.07.021  1
2018 Raj L, Ide T, Gurkar AU, Foley M, Schenone M, Li X, Tolliday NJ, Golub TR, Carr SA, Shamji AF, Stern AM, Mandinova A, Schreiber SL, Lee SW. Retraction Note: Selective killing of cancer cells by a small molecule targeting the stress response to ROS. Nature. PMID 30046103 DOI: 10.1038/s41586-018-0284-y  1
2017 Subramanian A, Narayan R, Corsello SM, Peck DD, Natoli TE, Lu X, Gould J, Davis JF, Tubelli AA, Asiedu JK, Lahr DL, Hirschman JE, Liu Z, Donahue M, Julian B, ... ... Shamji AF, et al. A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles. Cell. 171: 1437-1452.e17. PMID 29195078 DOI: 10.1016/j.cell.2017.10.049  1
2017 Leshchiner ES, Rush JS, Durney MA, Cao Z, Dančík V, Chittick B, Wu H, Petrone A, Bittker JA, Phillips A, Perez JR, Shamji AF, Kaushik VK, Daly MJ, Graham DB, et al. Small-molecule inhibitors directly target CARD9 and mimic its protective variant in inflammatory bowel disease. Proceedings of the National Academy of Sciences of the United States of America. 114: 11392-11397. PMID 29073062 DOI: 10.1073/pnas.1705748114  1
2017 Johannessen L, Sundberg TB, O'Connell DJ, Kolde R, Berstler J, Billings KJ, Khor B, Seashore-Ludlow B, Fassl A, Russell CN, Latorre IJ, Jiang B, Graham DB, Perez JR, Sicinski P, ... ... Shamji AF, et al. Small-molecule studies identify CDK8 as a regulator of IL-10 in myeloid cells. Nature Chemical Biology. PMID 28805801 DOI: 10.1038/nchembio.2458  1
2017 Viswanathan VS, Ryan MJ, Dhruv HD, Gill S, Eichhoff OM, Seashore-Ludlow B, Kaffenberger SD, Eaton JK, Shimada K, Aguirre AJ, Viswanathan SR, Chattopadhyay S, Tamayo P, Yang WS, Rees MG, ... ... Shamji AF, et al. Dependency of a therapy-resistant state of cancer cells on a lipid peroxidase pathway. Nature. PMID 28678785 DOI: 10.1038/nature23007  1
2017 Bray MA, Gustafsdottir SM, Ljosa V, Singh S, Sokolnicki KL, Bittker JA, Bodycombe NE, Dancík V, Hasaka TP, Hon CS, Kemp MM, Li K, Walpita D, Wawer MJ, Golub TR, ... ... Shamji AF, et al. A dataset of images and morphological profiles of 30,000 small-molecule treatments using the Cell Painting assay. Gigascience. PMID 28327978 DOI: 10.1093/gigascience/giw014  1
2016 Law JM, Stark SC, Liu K, Liang NE, Hussain MM, Leiendecker M, Ito D, Verho O, Stern AM, Johnston SE, Zhang YL, Dunn GP, Shamji AF, Schreiber SL. Discovery of 8-Membered Ring Sulfonamides as Inhibitors of Oncogenic Mutant Isocitrate Dehydrogenase 1. Acs Medicinal Chemistry Letters. 7: 944-949. PMID 27774134 DOI: 10.1021/acsmedchemlett.6b00264  0.84
2016 Gerhard DS, Clemons PA, Shamji AF, Hon C, Wagner BK, Schreiber SL, Krasnitz A, Sordella R, Sander C, Lowe SW, Powers S, Smith K, Aburi M, Iavarone A, Lasorella A, et al. Transforming Big Data into cancer-relevant insight: An initial, multi-tier approach to assess reproducibility and relevance. Molecular Cancer Research : McR. PMID 27401613 DOI: 10.1158/1541-7786.MCR-16-0090  1
2016 Hong AL, Tseng YY, Cowley GS, Jonas O, Cheah JH, Kynnap BD, Doshi MB, Oh C, Meyer SC, Church AJ, Gill S, Bielski CM, Keskula P, Imamovic A, Howell S, ... ... Shamji AF, et al. Integrated genetic and pharmacologic interrogation of rare cancers. Nature Communications. 7: 11987. PMID 27329820 DOI: 10.1038/ncomms11987  0.84
2016 Sundberg TB, Liang Y, Wu H, Choi HG, Kim ND, Sim T, Johannessen L, Petrone A, Khor B, Graham DB, Latorre IJ, Phillips AJ, Schreiber SL, Perez J, Shamji AF, et al. Development of Chemical Probes for Investigation of Salt-Inducible Kinase Function In Vivo. Acs Chemical Biology. PMID 27224444 DOI: 10.1021/acschembio.6b00217  0.84
2016 Hanaford AR, Archer TC, Price A, Kahlert UD, Maciaczyk J, Nikkhah G, Kim JW, Ehrenberger T, Clemons PA, Dančík V, Seashore-Ludlow B, Viswanathan V, Stewart ML, Rees M, Shamji AF, et al. DiSCoVERing innovative therapies for rare tumors: combining genetically accurate disease models with in silico analysis to identify novel therapeutic targets. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 27012813 DOI: 10.1158/1078-0432.CCR-15-3011  0.84
2016 Yu C, Mannan AM, Yvone GM, Ross KN, Zhang YL, Marton MA, Taylor BR, Crenshaw A, Gould JZ, Tamayo P, Weir BA, Tsherniak A, Wong B, Garraway LA, Shamji AF, et al. High-throughput identification of genotype-specific cancer vulnerabilities in mixtures of barcoded tumor cell lines. Nature Biotechnology. PMID 26928769 DOI: 10.1038/nbt.3460  0.84
2015 Rees MG, Seashore-Ludlow B, Cheah JH, Adams DJ, Price EV, Gill S, Javaid S, Coletti ME, Jones VL, Bodycombe NE, Soule CK, Alexander B, Li A, Montgomery P, Kotz JD, ... ... Shamji AF, et al. Correlating chemical sensitivity and basal gene expression reveals mechanism of action. Nature Chemical Biology. PMID 26656090 DOI: 10.1038/nchembio.1986  0.84
2015 de Waal L, Lewis TA, Rees MG, Tsherniak A, Wu X, Choi PS, Gechijian L, Hartigan C, Faloon PW, Hickey MJ, Tolliday N, Carr SA, Clemons PA, Munoz B, Wagner BK, ... Shamji AF, et al. Identification of cancer-cytotoxic modulators of PDE3A by predictive chemogenomics. Nature Chemical Biology. PMID 26656089 DOI: 10.1038/nchembio.1984  0.84
2015 Cao Z, Conway KL, Heath RJ, Rush JS, Leshchiner ES, Ramirez-Ortiz ZG, Nedelsky NB, Huang H, Ng A, Gardet A, Cheng SC, Shamji AF, Rioux JD, Wijmenga C, Netea MG, et al. Ubiquitin Ligase TRIM62 Regulates CARD9-Mediated Anti-fungal Immunity and Intestinal Inflammation. Immunity. 43: 715-26. PMID 26488816 DOI: 10.1016/j.immuni.2015.10.005  0.84
2015 Seashore-Ludlow B, Rees MG, Cheah JH, Cokol M, Price EV, Coletti ME, Jones V, Bodycombe NE, Soule CK, Gould J, Alexander B, Li A, Montgomery P, Wawer MJ, Kuru N, ... ... Shamji AF, et al. Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset. Cancer Discovery. 5: 1210-23. PMID 26482930 DOI: 10.1158/2159-8290.CD-15-0235  0.84
2015 Raj L, Ide T, Gurkar AU, Foley M, Schenone M, Li X, Tolliday NJ, Golub TR, Carr SA, Shamji AF, Stern AM, Mandinova A, Schreiber SL, Lee SW. Corrigendum: Selective killing of cancer cells by a small molecule targeting the stress response to ROS. Nature. PMID 26375002 DOI: 10.1038/nature15370  1
2015 Kuo SY, Castoreno AB, Aldrich LN, Lassen KG, Goel G, Dan?ík V, Kuballa P, Latorre I, Conway KL, Sarkar S, Maetzel D, Jaenisch R, Clemons PA, Schreiber SL, Shamji AF, et al. Small-molecule enhancers of autophagy modulate cellular disease phenotypes suggested by human genetics. Proceedings of the National Academy of Sciences of the United States of America. PMID 26195741 DOI: 10.1073/pnas.1512289112  0.84
2015 Schreiber SL, Kotz JD, Li M, Aubé J, Austin CP, Reed JC, Rosen H, White EL, Sklar LA, Lindsley CW, Alexander BR, Bittker JA, Clemons PA, de Souza A, Foley MA, ... ... Shamji AF, et al. Advancing Biological Understanding and Therapeutics Discovery with Small-Molecule Probes. Cell. 161: 1252-1265. PMID 26046436 DOI: 10.1016/j.cell.2015.05.023  0.84
2015 Khor B, Gagnon JD, Goel G, Roche MI, Conway KL, Tran K, Aldrich LN, Sundberg TB, Paterson AM, Mordecai S, Dombkowski D, Schirmer M, Tan PH, Bhan AK, Roychoudhuri R, ... ... Shamji AF, et al. The kinase DYRK1A reciprocally regulates the differentiation of Th17 and regulatory T cells. Elife. 4. PMID 25998054 DOI: 10.7554/eLife.05920  0.84
2015 Stewart ML, Tamayo P, Wilson AJ, Wang S, Chang YM, Kim JW, Khabele D, Shamji AF, Schreiber SL. KRAS Genomic Status Predicts the Sensitivity of Ovarian Cancer Cells to Decitabine. Cancer Research. 75: 2897-906. PMID 25968887 DOI: 10.1158/0008-5472.CAN-14-2860  0.84
2015 Aldrich LN, Kuo SY, Castoreno AB, Goel G, Kuballa P, Rees MG, Seashore-Ludlow BA, Cheah JH, Latorre IJ, Schreiber SL, Shamji AF, Xavier RJ. Discovery of a Small-Molecule Probe for V-ATPase Function. Journal of the American Chemical Society. 137: 5563-8. PMID 25860544 DOI: 10.1021/jacs.5b02150  0.84
2015 Chattopadhyay S, Stewart AL, Mukherjee S, Huang C, Hartwell KA, Miller PG, Subramanian R, Carmody LC, Yusuf RZ, Sykes DB, Paulk J, Vetere A, Vallet S, Santo L, Cirstea DD, ... ... Shamji AF, et al. Niche-Based Screening in Multiple Myeloma Identifies a Kinesin-5 Inhibitor with Improved Selectivity over Hematopoietic Progenitors. Cell Reports. PMID 25660025 DOI: 10.1016/j.celrep.2015.01.017  0.84
2015 Martins MM, Zhou AY, Corella A, Horiuchi D, Yau C, Rakshandehroo T, Gordan JD, Levin RS, Johnson J, Jascur J, Shales M, Sorrentino A, Cheah J, Clemons PA, Shamji AF, et al. Linking tumor mutations to drug responses via a quantitative chemical-genetic interaction map. Cancer Discovery. 5: 154-67. PMID 25501949 DOI: 10.1158/2159-8290.CD-14-0552  1
2014 Sundberg TB, Xavier RJ, Schreiber SL, Shamji AF. Small-molecule control of cytokine function: new opportunities for treating immune disorders. Current Opinion in Chemical Biology. 23: 23-30. PMID 25222143 DOI: 10.1016/j.cbpa.2014.08.013  0.84
2014 Sundberg TB, Choi HG, Song JH, Russell CN, Hussain MM, Graham DB, Khor B, Gagnon J, O'Connell DJ, Narayan K, Dan?ík V, Perez JR, Reinecker HC, Gray NS, Schreiber SL, ... ... Shamji AF, et al. Small-molecule screening identifies inhibition of salt-inducible kinases as a therapeutic strategy to enhance immunoregulatory functions of dendritic cells. Proceedings of the National Academy of Sciences of the United States of America. 111: 12468-73. PMID 25114223 DOI: 10.1073/pnas.1412308111  0.84
2014 Adams DJ, Ito D, Rees MG, Seashore-Ludlow B, Puyang X, Ramos AH, Cheah JH, Clemons PA, Warmuth M, Zhu P, Shamji AF, Schreiber SL. NAMPT is the cellular target of STF-31-like small-molecule probes. Acs Chemical Biology. 9: 2247-54. PMID 25058389 DOI: 10.1021/cb500347p  0.84
2014 Wawer MJ, Li K, Gustafsdottir SM, Ljosa V, Bodycombe NE, Marton MA, Sokolnicki KL, Bray MA, Kemp MM, Winchester E, Taylor B, Grant GB, Hon CS, Duvall JR, Wilson JA, ... ... Shamji AF, et al. Toward performance-diverse small-molecule libraries for cell-based phenotypic screening using multiplexed high-dimensional profiling. Proceedings of the National Academy of Sciences of the United States of America. 111: 10911-6. PMID 25024206 DOI: 10.1073/pnas.1410933111  0.84
2014 Lassen KG, Kuballa P, Conway KL, Patel KK, Becker CE, Peloquin JM, Villablanca EJ, Norman JM, Liu TC, Heath RJ, Becker ML, Fagbami L, Horn H, Mercer J, Yilmaz OH, ... ... Shamji AF, et al. Atg16L1 T300A variant decreases selective autophagy resulting in altered cytokine signaling and decreased antibacterial defense. Proceedings of the National Academy of Sciences of the United States of America. 111: 7741-6. PMID 24821797 DOI: 10.1073/pnas.1407001111  0.84
2014 Wawer MJ, Jaramillo DE, Dan?ík V, Fass DM, Haggarty SJ, Shamji AF, Wagner BK, Schreiber SL, Clemons PA. Automated Structure-Activity Relationship Mining: Connecting Chemical Structure to Biological Profiles. Journal of Biomolecular Screening. 19: 738-748. PMID 24710340 DOI: 10.1177/1087057114530783  0.84
2014 Dan?ík V, Carrel H, Bodycombe NE, Seiler KP, Fomina-Yadlin D, Kubicek ST, Hartwell K, Shamji AF, Wagner BK, Clemons PA. Connecting Small Molecules with Similar Assay Performance Profiles Leads to New Biological Hypotheses. Journal of Biomolecular Screening. 19: 771-781. PMID 24464433 DOI: 10.1177/1087057113520226  0.84
2014 Yang WS, SriRamaratnam R, Welsch ME, Shimada K, Skouta R, Viswanathan VS, Cheah JH, Clemons PA, Shamji AF, Clish CB, Brown LM, Girotti AW, Cornish VW, Schreiber SL, Stockwell BR. Regulation of ferroptotic cancer cell death by GPX4. Cell. 156: 317-31. PMID 24439385 DOI: 10.1016/j.cell.2013.12.010  0.84
2013 Gustafsdottir SM, Ljosa V, Sokolnicki KL, Anthony Wilson J, Walpita D, Kemp MM, Petri Seiler K, Carrel HA, Golub TR, Schreiber SL, Clemons PA, Carpenter AE, Shamji AF. Multiplex cytological profiling assay to measure diverse cellular states. Plos One. 8: e80999. PMID 24312513 DOI: 10.1371/journal.pone.0080999  0.84
2013 Shaw SY, Tran K, Castoreno AB, Peloquin JM, Lassen KG, Khor B, Aldrich LN, Tan PH, Graham DB, Kuballa P, Goel G, Daly MJ, Shamji AF, Schreiber SL, Xavier RJ. Selective modulation of autophagy, innate immunity, and adaptive immunity by small molecules. Acs Chemical Biology. 8: 2724-33. PMID 24168452 DOI: 10.1021/cb400352d  0.84
2013 Hartwell KA, Miller PG, Mukherjee S, Kahn AR, Stewart AL, Logan DJ, Negri JM, Duvet M, Järås M, Puram R, Dancik V, Al-Shahrour F, Kindler T, Tothova Z, Chattopadhyay S, ... ... Shamji AF, et al. Niche-based screening identifies small-molecule inhibitors of leukemia stem cells. Nature Chemical Biology. 9: 840-8. PMID 24161946 DOI: 10.1038/nchembio.1367  0.84
2013 Basu A, Bodycombe NE, Cheah JH, Price EV, Liu K, Schaefer GI, Ebright RY, Stewart ML, Ito D, Wang S, Bracha AL, Liefeld T, Wawer M, Gilbert JC, Wilson AJ, ... ... Shamji AF, et al. An interactive resource to identify cancer genetic and lineage dependencies targeted by small molecules. Cell. 154: 1151-61. PMID 23993102 DOI: 10.1016/j.cell.2013.08.003  0.84
2013 Conway KL, Kuballa P, Song JH, Patel KK, Castoreno AB, Yilmaz OH, Jijon HB, Zhang M, Aldrich LN, Villablanca EJ, Peloquin JM, Goel G, Lee IA, Mizoguchi E, Shi HN, ... ... Shamji AF, et al. Atg16l1 is required for autophagy in intestinal epithelial cells and protection of mice from Salmonella infection. Gastroenterology. 145: 1347-57. PMID 23973919 DOI: 10.1053/j.gastro.2013.08.035  0.84
2013 Yuan Y, Tang AJ, Castoreno AB, Kuo SY, Wang Q, Kuballa P, Xavier R, Shamji AF, Schreiber SL, Wagner BK. Gossypol and an HMT G9a inhibitor act in synergy to induce cell death in pancreatic cancer cells. Cell Death & Disease. 4: e690. PMID 23807219 DOI: 10.1038/cddis.2013.191  0.84
2013 Schaefer GI, Perez JR, Duvall JR, Stanton BZ, Shamji AF, Schreiber SL. Discovery of small-molecule modulators of the Sonic Hedgehog pathway. Journal of the American Chemical Society. 135: 9675-80. PMID 23725514 DOI: 10.1021/ja400034k  0.84
2013 Adams DJ, Boskovic ZV, Theriault JR, Wang AJ, Stern AM, Wagner BK, Shamji AF, Schreiber SL. Discovery of small-molecule enhancers of reactive oxygen species that are nontoxic or cause genotype-selective cell death. Acs Chemical Biology. 8: 923-9. PMID 23477340 DOI: 10.1021/cb300653v  0.84
2012 Adams DJ, Dai M, Pellegrino G, Wagner BK, Stern AM, Shamji AF, Schreiber SL. Synthesis, cellular evaluation, and mechanism of action of piperlongumine analogs. Proceedings of the National Academy of Sciences of the United States of America. 109: 15115-20. PMID 22949699 DOI: 10.1073/pnas.1212802109  0.84
2012 Yuan Y, Wang Q, Paulk J, Kubicek S, Kemp MM, Adams DJ, Shamji AF, Wagner BK, Schreiber SL. A small-molecule probe of the histone methyltransferase G9a induces cellular senescence in pancreatic adenocarcinoma. Acs Chemical Biology. 7: 1152-7. PMID 22536950 DOI: 10.1021/cb300139y  0.84
2012 Kubicek S, Gilbert JC, Fomina-Yadlin D, Gitlin AD, Yuan Y, Wagner FF, Holson EB, Luo T, Lewis TA, Taylor B, Gupta S, Shamji AF, Wagner BK, Clemons PA, Schreiber SL. Chromatin-targeting small molecules cause class-specific transcriptional changes in pancreatic endocrine cells. Proceedings of the National Academy of Sciences of the United States of America. 109: 5364-9. PMID 22434908 DOI: 10.1073/pnas.1201079109  0.84
2011 Raj L, Ide T, Gurkar AU, Foley M, Schenone M, Li X, Tolliday NJ, Golub TR, Carr SA, Shamji AF, Stern AM, Mandinova A, Schreiber SL, Lee SW. Selective killing of cancer cells by a small molecule targeting the stress response to ROS. Nature. 475: 231-4. PMID 21753854 DOI: 10.1038/nature10167  0.84
2010 Clemons PA, Bodycombe NE, Carrinski HA, Wilson JA, Shamji AF, Wagner BK, Koehler AN, Schreiber SL. Small molecules of different origins have distinct distributions of structural complexity that correlate with protein-binding profiles. Proceedings of the National Academy of Sciences of the United States of America. 107: 18787-92. PMID 20956335 DOI: 10.1073/pnas.1012741107  0.84
2010 Schreiber SL, Shamji AF, Clemons PA, Hon C, Koehler AN, Munoz B, Palmer M, Stern AM, Wagner BK, Powers S, Lowe SW, Guo X, Krasnitz A, Sawey ET, et al. Towards patient-based cancer therapeutics. Nature Biotechnology. 28: 904-6. PMID 20829823 DOI: 10.1038/nbt0910-904  0.84
2004 Humphrey EL, Shamji AF, Bernstein BE, Schreiber SL. Rpd3p relocation mediates a transcriptional response to rapamycin in yeast. Chemistry & Biology. 11: 295-9. PMID 15123258 DOI: 10.1016/j.chembiol.2004.03.001  0.84
2003 Shamji AF, Nghiem P, Schreiber SL. Integration of growth factor and nutrient signaling: implications for cancer biology. Molecular Cell. 12: 271-80. PMID 14536067  1
2003 Koehler AN, Shamji AF, Schreiber SL. Discovery of an inhibitor of a transcription factor using small molecule microarrays and diversity-oriented synthesis. Journal of the American Chemical Society. 125: 8420-1. PMID 12848532 DOI: 10.1021/ja0352698  1
2002 Kuruvilla FG, Shamji AF, Sternson SM, Hergenrother PJ, Schreiber SL. Dissecting glucose signalling with diversity-oriented synthesis and small-molecule microarrays. Nature. 416: 653-7. PMID 11948353 DOI: 10.1038/416653a  0.84
2001 Kuruvilla FG, Shamji AF, Schreiber SL. Carbon- and nitrogen-quality signaling to translation are mediated by distinct GATA-type transcription factors. Proceedings of the National Academy of Sciences of the United States of America. 98: 7283-8. PMID 11416207 DOI: 10.1073/pnas.121186898  0.84
2000 Shamji AF, Kuruvilla FG, Schreiber SL. Partitioning the transcriptional program induced by rapamycin among the effectors of the Tor proteins. Current Biology : Cb. 10: 1574-81. PMID 11137008 DOI: 10.1016/S0960-9822(00)00866-6  0.84
1999 Hardwick JS, Kuruvilla FG, Tong JK, Shamji AF, Schreiber SL. Rapamycin-modulated transcription defines the subset of nutrient-sensitive signaling pathways directly controlled by the Tor proteins. Proceedings of the National Academy of Sciences of the United States of America. 96: 14866-70. PMID 10611304 DOI: 10.1073/pnas.96.26.14866  0.84
Show low-probability matches.