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Rameen Beroukhim, M.D. Ph.D. - Publications

Affiliations: 
Cancer Biology, Medical Oncology Dana-Farber Cancer Institute, Boston, MA, United States 
 Cancer Program Broad Institute (MIT/Harvard) 
 Medicine Harvard Medical School 
Area:
neuroscience, structural biology, computational biology, oncology, genomics
Website:
https://beroukhimlab.org
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323 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
2024 Lim-Fat MJ, Iorgulescu JB, Rahman R, Bhave V, Muzikansky A, Woodward E, Whorral S, Allen M, Touat M, Li X, Xu G, Patel J, Gerstner ER, Kalpathy-Cramer J, Youssef G, ... ... Beroukhim R, et al. Clinical and genomic predictors of adverse events in newly diagnosed glioblastoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 38252427 DOI: 10.1158/1078-0432.CCR-23-3018  0.505
2024 Giacomini G, Piquet S, Chevallier O, Dabin J, Bai SK, Kim B, Siddaway R, Raught B, Coyaud E, Shan CM, Reid RJD, Toda T, Rothstein R, Barra V, Wilhelm T, ... ... Beroukhim R, et al. Aberrant DNA repair reveals a vulnerability in histone H3.3-mutant brain tumors. Nucleic Acids Research. PMID 38214234 DOI: 10.1093/nar/gkad1257  0.758
2023 Chukwu W, Lee S, Crane A, Zhang S, Mittra I, Imielinski M, Beroukhim R, Dubois F, Dalin S. Genomic sequence context differs between germline and somatic structural variants allowing for their differentiation in tumor samples without paired normals. Biorxiv : the Preprint Server For Biology. PMID 38106141 DOI: 10.1101/2023.10.09.561462  0.81
2023 Dalin S, Webster S, Sugawara N, Zhang S, Wu Q, Cui T, Liang V, Beroukhim R, Haber JE. Double-strand break repair-associated intragenic deletions and tandem duplications suggest the architecture of the repair replication fork. Biorxiv : the Preprint Server For Biology. PMID 37873277 DOI: 10.1101/2023.10.09.561461  0.764
2023 Rahman R, Trippa L, Lee EQ, Arrillaga-Romany I, Fell G, Touat M, McCluskey C, Wiley J, Gaffey S, Drappatz J, Welch MR, Galanis E, Ahluwalia MS, Colman H, Nabors LB, ... ... Beroukhim R, et al. Inaugural Results of the Individualized Screening Trial of Innovative Glioblastoma Therapy: A Phase II Platform Trial for Newly Diagnosed Glioblastoma Using Bayesian Adaptive Randomization. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. JCO2300493. PMID 37722087 DOI: 10.1200/JCO.23.00493  0.472
2023 Shih J, Sarmashghi S, Zhakula-Kostadinova N, Zhang S, Georgis Y, Hoyt SH, Cuoco MS, Gao GF, Spurr LF, Berger AC, Ha G, Rendo V, Shen H, Meyerson M, Cherniack AD, ... ... Beroukhim R, et al. Cancer aneuploidies are shaped primarily by effects on tumour fitness. Nature. PMID 37380777 DOI: 10.1038/s41586-023-06266-3  0.613
2023 Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, ... ... Beroukhim R, et al. Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nature Genetics. PMID 36944736 DOI: 10.1038/s41588-023-01319-9  0.711
2023 Blandin AF, Giglio R, Graham MS, Garcia G, Malinowski S, Woods JK, Ramkissoon S, Ramkissoon L, Dubois F, Schoolcraft K, Tsai J, Wang D, Jones R, Vogelzang J, Pelton K, ... ... Beroukhim R, et al. ALK amplification and rearrangements are recurrent targetable events in congenital and adult glioblastoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 36780194 DOI: 10.1158/1078-0432.CCR-21-3521  0.781
2023 Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M, Weischenfeldt J, Beroukhim R, Campbell PJ. Author Correction: Patterns of somatic structural variation in human cancer genomes. Nature. PMID 36697835 DOI: 10.1038/s41586-022-05597-x  0.809
2023 Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, ... ... Beroukhim R, et al. Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nature. PMID 36697832 DOI: 10.1038/s41586-022-05599-9  0.808
2022 So J, Mabe NW, Englinger B, Chow KH, Moyer SM, Yerrum S, Trissal MC, Graca Marques J, Kwon JJ, Shim BH, Pal S, Panditharatna E, Quinn TW, Schaefer DA, Jeong D, ... ... Beroukhim R, et al. VRK1 as a synthetic lethal target in VRK2-methylated cancers of the nervous system. Jci Insight. PMID 36040810 DOI: 10.1172/jci.insight.158755  0.307
2022 Gao GF, Oh C, Saksena G, Deng D, Westlake LC, Hill BA, Reich M, Schumacher SE, Berger AC, Carter SL, Cherniack AD, Meyerson M, Tabak B, Beroukhim R, Getz G. Tangent normalization for somatic copy-number inference in cancer genome analysis. Bioinformatics (Oxford, England). PMID 36040167 DOI: 10.1093/bioinformatics/btac586  0.634
2022 Zhou M, Ko M, Hoge AC, Luu K, Liu Y, Russell ML, Hannon WW, Zhang Z, Carrot-Zhang J, Beroukhim R, Van Allen EM, Choudhury AD, Nelson PS, Freedman M, Taplin ME, et al. Patterns of structural variation define prostate cancer across disease states. Jci Insight. PMID 35943799 DOI: 10.1172/jci.insight.161370  0.787
2022 Hoge ACH, Getz M, Zimmer A, Ko M, Raz L, Beroukhim R, Golub TR, Ha G, Ben-David U. Publisher Correction: DNA-based copy number analysis confirms genomic evolution of PDX models. Npj Precision Oncology. 6: 50. PMID 35821277 DOI: 10.1038/s41698-022-00293-5  0.706
2022 Dubois FPB, Shapira O, Greenwald NF, Zack T, Wala J, Tsai JW, Crane A, Baguette A, Hadjadj D, Harutyunyan AS, Kumar KH, Blattner-Johnson M, Vogelzang J, Sousa C, Kang KS, ... ... Beroukhim R, et al. Structural variants shape driver combinations and outcomes in pediatric high-grade glioma. Nature Cancer. PMID 35788723 DOI: 10.1038/s43018-022-00403-z  0.803
2022 Dubois F, Sidiropoulos N, Weischenfeldt J, Beroukhim R. Structural variations in cancer and the 3D genome. Nature Reviews. Cancer. PMID 35764888 DOI: 10.1038/s41568-022-00488-9  0.726
2022 Hoge ACH, Getz M, Zimmer A, Ko M, Raz L, Beroukhim R, Golub TR, Ha G, David UB. DNA-based copy number analysis confirms genomic evolution of PDX models. Npj Precision Oncology. 6: 30. PMID 35484194 DOI: 10.1038/s41698-022-00268-6  0.525
2022 Creasy CA, Meng YJ, Forget MA, Karpinets T, Tomczak K, Stewart C, Torres-Cabala CA, Pilon-Thomas S, Sarnaik AA, Mule JJ, Garraway L, Bustos M, Zhang J, Patel SP, Diab A, ... ... Beroukhim R, et al. Genomic Correlates of Outcome in Tumor-Infiltrating Lymphocyte Therapy for Metastatic Melanoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 35190823 DOI: 10.1158/1078-0432.CCR-21-1060  0.481
2022 Khadka P, Reitman ZJ, Lu S, Buchan G, Gionet G, Dubois F, Carvalho DM, Shih J, Zhang S, Greenwald NF, Zack T, Shapira O, Pelton K, Hartley R, Bear H, ... ... Beroukhim R, et al. PPM1D mutations are oncogenic drivers of de novo diffuse midline glioma formation. Nature Communications. 13: 604. PMID 35105861 DOI: 10.1038/s41467-022-28198-8  0.811
2022 Pagès M, Rotem D, Gydush G, Reed S, Rhoades J, Ha G, Lo C, Fleharty M, Duran M, Jones R, Becker S, Haller M, Sinai CE, Goumnerova L, Golub TR, ... ... Beroukhim R, et al. Liquid biopsy detection of genomic alterations in pediatric brain tumors from cell-free DNA in peripheral blood, CSF, and urine. Neuro-Oncology. PMID 34984433 DOI: 10.1093/neuonc/noab299  0.67
2021 Lim-Fat MJ, Youssef GC, Touat M, Iorgulescu JB, Whorral S, Allen M, Rahman R, Chukwueke U, McFaline-Figueroa JR, Nayak L, Lee EQ, Batchelor TT, Arnaout O, Peruzzi PP, Chiocca EA, ... ... Beroukhim R, et al. Clinical utility of targeted next generation sequencing assay in IDH-wildtype glioblastoma for therapy decision-making. Neuro-Oncology. PMID 34878541 DOI: 10.1093/neuonc/noab282  0.473
2021 Driver J, Hoffman SE, Tavakol S, Woodward E, Maury EA, Bhave V, Greenwald NF, Nassiri F, Aldape K, Zadeh G, Choudhury A, Vasudevan HN, Magill ST, Raleigh DR, Abedalthagafi M, ... ... Beroukhim R, et al. A Molecularly Integrated Grade for Meningioma. Neuro-Oncology. PMID 34508644 DOI: 10.1093/neuonc/noab213  0.599
2021 Tan KT, Kim H, Carrot-Zhang J, Zhang Y, Kim WJ, Kugener G, Wala JA, Howard TP, Chi YY, Beroukhim R, Li H, Ha G, Alper SL, Perlman EJ, Mullen EA, et al. Haplotype-resolved germline and somatic alterations in renal medullary carcinomas. Genome Medicine. 13: 114. PMID 34261517 DOI: 10.1186/s13073-021-00929-4  0.748
2021 Bi WL, Nayak L, Meredith DM, Driver J, Du Z, Hoffman S, Li Y, Lee EQ, Beroukhim R, Rinne M, McFaline-Figueroa R, Chukwueke U, McCluskey C, Gaffey S, Cherniack AD, et al. Activity of PD-1 blockade with Nivolumab among patients with recurrent atypical/anaplastic meningioma: Phase II trial results. Neuro-Oncology. PMID 34015129 DOI: 10.1093/neuonc/noab118  0.569
2021 Dentro SC, Leshchiner I, Haase K, Tarabichi M, Wintersinger J, Deshwar AG, Yu K, Rubanova Y, Macintyre G, Demeulemeester J, Vázquez-García I, Kleinheinz K, Livitz DG, Malikic S, Donmez N, ... ... Beroukhim R, et al. Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes. Cell. PMID 33831375 DOI: 10.1016/j.cell.2021.03.009  0.404
2021 Carrot-Zhang J, Yao X, Devarakonda S, Deshpande A, Damrauer JS, Silva TC, Wong CK, Choi HY, Felau I, Robertson AG, Castro MAA, Bao L, Rheinbay E, Liu EM, Trieu T, ... ... Beroukhim R, et al. Whole-genome characterization of lung adenocarcinomas lacking alterations in the RTK/RAS/RAF pathway. Cell Reports. 34: 108784. PMID 33626341 DOI: 10.1016/j.celrep.2021.108784  0.771
2021 Carrot-Zhang J, Yao X, Devarakonda S, Deshpande A, Damrauer JS, Silva TC, Wong CK, Choi HY, Felau I, Robertson AG, Castro MAA, Bao L, Rheinbay E, Liu EM, Trieu T, ... ... Beroukhim R, et al. Whole-genome characterization of lung adenocarcinomas lacking the RTK/RAS/RAF pathway. Cell Reports. 34: 108707. PMID 33535033 DOI: 10.1016/j.celrep.2021.108707  0.81
2021 Cohen-Sharir Y, McFarland JM, Abdusamad M, Marquis C, Bernhard SV, Kazachkova M, Tang H, Ippolito MR, Laue K, Zerbib J, Malaby HLH, Jones A, Stautmeister LM, Bockaj I, Wardenaar R, ... ... Beroukhim R, et al. Aneuploidy renders cancer cells vulnerable to mitotic checkpoint inhibition. Nature. PMID 33505028 DOI: 10.1038/s41586-020-03114-6  0.797
2020 Chen CCL, Deshmukh S, Jessa S, Hadjadj D, Lisi V, Andrade AF, Faury D, Jawhar W, Dali R, Suzuki H, Pathania M, A D, Dubois F, Woodward E, Hébert S, ... ... Beroukhim R, et al. Histone H3.3G34-Mutant Interneuron Progenitors Co-opt PDGFRA for Gliomagenesis. Cell. PMID 33259802 DOI: 10.1016/j.cell.2020.11.012  0.758
2020 Spurr LF, Touat M, Taylor AM, Dubuc AM, Shih J, Meredith DM, Pisano WV, Meyerson ML, Ligon KL, Cherniack AD, Li YY, Beroukhim R. Quantification of aneuploidy in targeted sequencing data using ASCETS. Bioinformatics (Oxford, England). PMID 33247715 DOI: 10.1093/bioinformatics/btaa980  0.566
2020 Feldman D, Tsai F, Garrity AJ, O'Rourke R, Brenan L, Ho P, Gonzalez E, Konermann S, Johannessen CM, Beroukhim R, Bandopadhayay P, Blainey PC. CloneSifter: enrichment of rare clones from heterogeneous cell populations. Bmc Biology. 18: 177. PMID 33234154 DOI: 10.1186/s12915-020-00911-3  0.556
2020 Hadi K, Yao X, Behr JM, Deshpande A, Xanthopoulakis C, Tian H, Kudman S, Rosiene J, Darmofal M, DeRose J, Mortensen R, Adney EM, Shaiber A, Gajic Z, Sigouros M, ... ... Beroukhim R, et al. Distinct Classes of Complex Structural Variation Uncovered across Thousands of Cancer Genome Graphs. Cell. 183: 197-210.e32. PMID 33007263 DOI: 10.1016/j.cell.2020.08.006  0.722
2020 Enache OM, Rendo V, Abdusamad M, Lam D, Davison D, Pal S, Currimjee N, Hess J, Pantel S, Nag A, Thorner AR, Doench JG, Vazquez F, Beroukhim R, Golub TR, et al. Author Correction: Cas9 activates the p53 pathway and selects for p53-inactivating mutations. Nature Genetics. PMID 32587373 DOI: 10.1038/S41588-020-0663-9  0.698
2020 Mineo M, Lyons SM, Zdioruk M, von Spreckelsen N, Ferrer-Luna R, Ito H, Alayo QA, Kharel P, Giantini Larsen A, Fan WY, Auduong S, Grauwet K, Passaro C, Khalsa JK, Shah K, ... ... Beroukhim R, et al. Tumor Interferon Signaling Is Regulated by a lncRNA INCR1 Transcribed from the PD-L1 Locus. Molecular Cell. PMID 32504554 DOI: 10.1016/J.Molcel.2020.05.015  0.309
2020 Oak N, Cherniack AD, Mashl RJ, Hirsch FR, Ding L, Beroukhim R, Gümüş ZH, Plon SE, Huang KL. Ancestry-specific predisposing germline variants in cancer. Genome Medicine. 12: 51. PMID 32471518 DOI: 10.1186/S13073-020-00744-3  0.38
2020 Nichols CA, Gibson WJ, Brown MS, Kosmicki JA, Busanovich JP, Wei H, Urbanski LM, Curimjee N, Berger AC, Gao GF, Cherniack AD, Dhe-Paganon S, Paolella BR, Beroukhim R. Loss of heterozygosity of essential genes represents a widespread class of potential cancer vulnerabilities. Nature Communications. 11: 2517. PMID 32433464 DOI: 10.1038/S41467-020-16399-Y  0.818
2020 Enache OM, Rendo V, Abdusamad M, Lam D, Davison D, Pal S, Currimjee N, Hess J, Pantel S, Nag A, Thorner AR, Doench JG, Vazquez F, Beroukhim R, Golub TR, et al. Cas9 activates the p53 pathway and selects for p53-inactivating mutations. Nature Genetics. PMID 32424350 DOI: 10.1038/S41588-020-0623-4  0.746
2020 Carrot-Zhang J, Chambwe N, Damrauer JS, Knijnenburg TA, Robertson AG, Yau C, Zhou W, Berger AC, Huang KL, Newberg JY, Mashl RJ, Romanel A, Sayaman RW, Demichelis F, Felau I, ... ... Beroukhim R, et al. Comprehensive Analysis of Genetic Ancestry and Its Molecular Correlates in Cancer. Cancer Cell. 37: 639-654.e6. PMID 32396860 DOI: 10.1016/J.Ccell.2020.04.012  0.43
2020 Lu Z, Paolella BR, Truex NL, Loftis AR, Liao X, Rabideau AE, Brown MS, Busanovich J, Beroukhim R, Pentelute BL. Targeting cancer gene dependencies with anthrax-mediated delivery of peptide nucleic acids. Acs Chemical Biology. PMID 32348107 DOI: 10.1021/Acschembio.9B01027  0.737
2020 Touat M, Li YY, Boynton AN, Spurr LF, Iorgulescu JB, Bohrson CL, Cortes-Ciriano I, Birzu C, Geduldig JE, Pelton K, Lim-Fat MJ, Pal S, Ferrer-Luna R, Ramkissoon SH, Dubois F, ... ... Beroukhim R, et al. Mechanisms and therapeutic implications of hypermutation in gliomas. Nature. 580: 517-523. PMID 32322066 DOI: 10.1038/S41586-020-2209-9  0.809
2020 Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, ... ... Beroukhim R, et al. Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nature. 578: 102-111. PMID 32025015 DOI: 10.1038/s41586-020-1965-x  0.831
2020 Gerstung M, Jolly C, Leshchiner I, Dentro SC, Gonzalez S, Rosebrock D, Mitchell TJ, Rubanova Y, Anur P, Yu K, Tarabichi M, Deshwar A, Wintersinger J, Kleinheinz K, Vázquez-García I, ... ... Beroukhim R, et al. The evolutionary history of 2,658 cancers. Nature. 578: 122-128. PMID 32025013 DOI: 10.1038/S41586-019-1907-7  0.471
2020 Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M, Weischenfeldt J, Beroukhim R, Campbell PJ, et al. Patterns of somatic structural variation in human cancer genomes. Nature. 578: 112-121. PMID 32025012 DOI: 10.1038/S41586-019-1913-9  0.831
2020 Sethi NS, Kikuchi O, Duronio GN, Stachler MD, McFarland JM, Ferrer-Luna R, Zhang Y, Bao C, Bronson R, Patil D, Sanchez-Vega F, Liu JB, Sicinska E, Lazaro JB, Ligon KL, ... Beroukhim R, et al. Early TP53 alterations engage environmental exposures to promote gastric premalignancy in an integrative mouse model. Nature Genetics. PMID 32025000 DOI: 10.1038/S41588-019-0574-9  0.612
2020 Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA. Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. Nature Genetics. PMID 32024999 DOI: 10.1038/S41588-019-0564-Y  0.441
2020 Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, ... ... Beroukhim R, et al. Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nature Genetics. PMID 32024998 DOI: 10.1038/S41588-019-0562-0  0.76
2020 Kurppa KJ, Liu Y, To C, Zhang T, Fan M, Vajdi A, Knelson EH, Xie Y, Lim K, Cejas P, Portell A, Lizotte PH, Ficarro SB, Li S, Chen T, ... ... Beroukhim R, et al. Treatment-Induced Tumor Dormancy through YAP-Mediated Transcriptional Reprogramming of the Apoptotic Pathway. Cancer Cell. 37: 104-122.e12. PMID 31935369 DOI: 10.1016/J.Ccell.2019.12.006  0.616
2020 Mineo M, Lyons SM, Ferrer-Luna R, Ito H, Spreckelsen Nv, Alayo QA, Khalsa JK, Shah K, Ligon KL, Beroukhim R, Ivanov P, Anderson PJ, Nakashima H, Lawler SE, Chiocca EA. Abstract B46: The long noncoding RNA INCA1 is a novel regulator of PD-L1 expression in tumors Cancer Immunology Research. 8. DOI: 10.1158/2326-6074.Tumimm19-B46  0.33
2020 Taylor AM, Jain S, Shih J, Cherniack AD, Beroukhim R, Meyerson M. Abstract A44: Functional models of chromosome arm-level aneuploidies in cancer Cancer Research. 80. DOI: 10.1158/1538-7445.Camodels2020-A44  0.638
2020 Touat M, Li YY, Boynton AN, Spurr LF, Iorgulescu B, Bohrson CL, Cortes-Ciriano I, Geduldig JE, Pelton K, Lim-Fat MJ, Pal S, Ramkissoon SH, Dubois F, Bellamy C, Currimjee N, ... ... Beroukhim R, et al. Abstract 5705: Mechanisms and therapeutic implications of hypermutation in gliomas Cancer Research. 80: 5705-5705. DOI: 10.1158/1538-7445.Am2020-5705  0.737
2019 Barthel FP, Johnson KC, Varn FS, Moskalik AD, Tanner G, Kocakavuk E, Anderson KJ, Abiola O, Aldape K, Alfaro KD, Alpar D, Amin SB, Ashley DM, Bandopadhayay P, Barnholtz-Sloan JS, ... Beroukhim R, et al. Longitudinal molecular trajectories of diffuse glioma in adults. Nature. PMID 31748746 DOI: 10.1038/S41586-019-1775-1  0.63
2019 Reitman ZJ, Paolella BR, Bergthold G, Pelton K, Becker S, Jones R, Sinai CE, Malkin H, Huang Y, Grimmet L, Herbert ZT, Sun Y, Weatherbee JL, Alberta JA, Daley JF, ... ... Beroukhim R, et al. Mitogenic and progenitor gene programmes in single pilocytic astrocytoma cells. Nature Communications. 10: 3731. PMID 31427603 DOI: 10.1038/S41467-019-11493-2  0.811
2019 Bandopadhayay P, Piccioni F, O'Rourke R, Ho P, Gonzalez EM, Buchan G, Qian K, Gionet G, Girard E, Coxon M, Rees MG, Brenan L, Dubois F, Shapira O, Greenwald NF, ... ... Beroukhim R, et al. Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma. Nature Communications. 10: 2400. PMID 31160565 DOI: 10.1038/S41467-019-10307-9  0.784
2019 Hong AL, Tseng YY, Wala JA, Kim WJ, Kynnap BD, Doshi MB, Kugener G, Sandoval GJ, Howard TP, Li J, Yang X, Tillgren M, Ghandi M, Sayeed A, Deasy R, ... ... Beroukhim R, et al. Renal medullary carcinomas depend upon loss and are sensitive to proteasome inhibition. Elife. 8. PMID 30860482 DOI: 10.7554/Elife.44161  0.796
2019 Miklja Z, Pasternak A, Stallard S, Nicolaides T, Kline-Nunnally C, Cole B, Beroukhim R, Bandopadhayay P, Chi S, Ramkissoon SH, Mullan B, Bruzek AK, Gauthier A, Garcia T, Atchison C, et al. Molecular profiling and targeted therapy in pediatric gliomas: review and consensus recommendations. Neuro-Oncology. PMID 30805642 DOI: 10.1093/Neuonc/Noz022  0.598
2019 Hong AL, Guerriero JL, Doshi MB, Kynnap BD, Kim WJ, Schinzel AC, Modiste R, Schlauch AJ, Adam RM, Kwiatkowski DJ, Beroukhim R, Letai A, Rosenberg JE, Hahn WC. MCL1 and DEDD promote urothelial carcinoma progression. Molecular Cancer Research : McR. PMID 30777879 DOI: 10.1158/1541-7786.Mcr-18-0963  0.329
2019 Wen PY, Touat M, Alexander BM, Mellinghoff IK, Ramkissoon S, McCluskey CS, Pelton K, Haidar S, Basu SS, Gaffey SC, Brown LE, Martinez-Ledesma JE, Wu S, Kim J, Wei W, ... ... Beroukhim R, et al. Buparlisib in Patients With Recurrent Glioblastoma Harboring Phosphatidylinositol 3-Kinase Pathway Activation: An Open-Label, Multicenter, Multi-Arm, Phase II Trial. Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. JCO1801207. PMID 30715997 DOI: 10.1200/Jco.18.01207  0.479
2019 Hong AL, Tseng Y, Wala JA, Kim W, Kynnap BD, Doshi MB, Kugener G, Sandoval GJ, Howard TP, Li J, Yang X, Tillgren M, Ghandi M, Sayeed A, Deasy R, ... ... Beroukhim R, et al. Author response: Renal medullary carcinomas depend upon SMARCB1 loss and are sensitive to proteasome inhibition Elife. DOI: 10.7554/Elife.44161.051  0.749
2019 Reitman ZJ, Paolella B, Bergthold G, Pelton K, Jones R, Becker S, Sinai CE, Malkin H, Huang Y, Grimmett L, Herbert ZT, Sun Y, Weatherbee J, Alberta J, Daley J, ... ... Beroukhim R, et al. Abstract 3647: Single cell RNA sequencing reveals mitogenic and progenitor gene programs inBRAF-rearranged pilocytic astrocytomas Cancer Research. 79: 3647-3647. DOI: 10.1158/1538-7445.Am2019-3647  0.821
2019 Touat M, Li Y, Boynton A, Spurr L, Iorgulescu B, Birzu C, Pal S, Ferrer-Luna R, Geduldig J, Bellamy C, Younan N, Baldini C, Verreault M, Guillerm E, Ammari S, ... ... Beroukhim R, et al. DRES-08. CLINICAL SIGNIFICANCE OF HYPERMUTATION IN GLIOMAS Neuro-Oncology. 21: vi73-vi73. DOI: 10.1093/Neuonc/Noz175.296  0.715
2019 Touat M, Li Y, Boynton A, Spurr L, Iorglescu B, Geduldig J, Birzu C, Lim Fat M, Santagata S, Coulet F, Beuvon F, Mokhtari K, Giry M, Block S, Guillerm E, ... ... Beroukhim R, et al. OS9.1 Clinical significance of hypermutation in gliomas Neuro-Oncology. 21: iii18-iii18. DOI: 10.1093/Neuonc/Noz126.059  0.609
2019 Lam FC, Vu-Han T, Van de Kooj B, Kong YW, Bandopadhayay P, Beroukhim R, Sarkaria J, Hammond P, Yaffe M. THER-22. BROMODOMAIN INHIBITORS INDUCE DOWNREGULATION OF DNA DAMAGE REPAIR PATHWAYS AND OFFER NOVEL SYNERGISTIC COMBINATIONS WITH ENHANCED SAFETY PROFILES FOR THE TREATMENT OF MEDULLOBLASTOMA AND GLIOBLASTOMA Neuro-Oncology. 21: ii118-ii118. DOI: 10.1093/Neuonc/Noz036.227  0.543
2019 Bandopadhayay P, Piccioni F, O’Rourke R, Ho P, Gonzalez E, Gionet G, Qian K, Clymer J, Balboni-Iniguez A, Lam F, Shapira O, Greenwald N, Rashid R, Tiv H, Coy S, ... ... Beroukhim R, et al. MEDU-37. NEURONAL DIFFERENTIATION AND CELL-CYCLE PROGRAMS MEDIATE RESPONSE AND RESISTANCE TO BET-BROMODOMAIN INHIBITION IN MYC-DRIVEN MEDULLOBLASTOMA Neuro-Oncology. 21: ii111-ii111. DOI: 10.1093/Neuonc/Noz036.195  0.544
2019 Clymer J, Gionet G, Gonzalez E, Buchan G, Qian K, Ho P, O’Rourke R, Balboni-Iniguez A, Stegmaier K, Ligon K, Piccioni F, Johannessen C, Beroukhim R, Bandopadhayay P. Medu-36. Bcl2 Family Members Attenuate Response Of Myc-Driven Medulloblastomas To Bet-Bromodomain Inhibition Neuro-Oncology. 21. DOI: 10.1093/Neuonc/Noz036.194  0.525
2019 Reitman Z, Paolella B, Bergthold G, Pelton K, Becker S, Jones R, Sinai C, Malkin H, Huang Y, Grimmet L, Herbert Z, Sun Y, Weatherbee J, Qian K, Condurat A, ... ... Beroukhim R, et al. LGG-05. SINGLE CELL RNA SEQUENCING REVEALS MITOGENIC AND PROGENITOR GENE PROGRAMS IN BRAF-REARRANGED PILOCYTIC ASTROCYTOMAS Neuro-Oncology. 21: ii99-ii99. DOI: 10.1093/Neuonc/Noz036.148  0.784
2019 Pagès M, Jones DTW, Boddaert N, Tauziède-Espariat A, Debily M, Blauwblomme T, Figarella-Branger D, Beroukhim R, Varlet P. Lgg-04. Clinico-Histo-Molecular Landscape Of Eighty-Two Pediatric And Young Adult Dysembryoplastic Neuroepithelial Tumors Neuro-Oncology. 21. DOI: 10.1093/Neuonc/Noz036.147  0.302
2019 Khadka P, Reitman ZJ, Buchan G, Hartley R, Bear H, Georgis Y, Jarmale S, Schoolcraft K, Miller P, Stiles CD, Chowdhury D, Haas-Kogan D, Johannessen C, Ebert BL, Ligon KL, ... ... Beroukhim R, et al. DIPG-12. CHARACTERIZING THE ROLE OF PPM1D MUTATIONS IN THE PATHOGENESIS OF DIFFUSE INTRINSIC PONTINE GLIOMAS (DIPGs) Neuro-Oncology. 21: ii70-ii71. DOI: 10.1093/Neuonc/Noz036.033  0.567
2019 Poussaint TY, Vajapeyam S, Brown D, Kao P, Ma C, Greenspan L, Gupta N, Goumnerova L, Bandopadhayay P, Beroukhim R, Ligon K, Kieran M, Chi S, Wright K. Dipg-02. Translational Mr Imaging Correlates For Molecular Analyses In Diffuse Intrinsic Pontine Glioma (Dipg) Neuro-Oncology. 21. DOI: 10.1093/Neuonc/Noz036.023  0.532
2019 Taylor A, Shih J, Ha G, Gao G, Zhang X, Berger A, Cherniack A, Beroukhim R, Meyerson M. MS12.02 Genomic and Functional Approaches to Understanding Cancer Aneuploidy Journal of Thoracic Oncology. 14: S179. DOI: 10.1016/J.Jtho.2019.08.355  0.619
2018 Ben-David U, Beroukhim R, Golub TR. Genomic evolution of cancer models: perils and opportunities. Nature Reviews. Cancer. PMID 30578414 DOI: 10.1038/S41568-018-0095-3  0.759
2018 Iniguez AB, Alexe G, Wang EJ, Roti G, Patel S, Chen L, Kitara S, Conway A, Robichaud AL, Stolte B, Bandopadhayay P, Goodale A, Pantel S, Lee Y, Cheff DM, ... ... Beroukhim R, et al. Resistance to Epigenetic-Targeted Therapy Engenders Tumor Cell Vulnerabilities Associated with Enhancer Remodeling. Cancer Cell. 34: 922-938.e7. PMID 30537514 DOI: 10.1016/J.Ccell.2018.11.005  0.6
2018 Holst F, Werner HMJ, Mjøs S, Hoivik EA, Kusonmano K, Wik E, Berg A, Birkeland E, Gibson WJ, Halle MK, Trovik J, Cherniack AD, Kalland KH, Mills GB, Singer CF, ... ... Beroukhim R, et al. Amplification Associates with Aggressive Phenotype but Not Markers of AKT-MTOR Signaling in Endometrial Carcinoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 30442683 DOI: 10.1158/1078-0432.Ccr-18-0452  0.692
2018 Wong GS, Zhou J, Bin Liu J, Wu Z, Xu X, Li T, Xu D, Schumacher SE, Puschhof J, McFarland J, Zou C, Dulak A, Henderson L, Xu P, O'Day E, ... ... Beroukhim R, et al. Author Correction: Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition. Nature Medicine. PMID 30093730 DOI: 10.1038/S41591-018-0168-6  0.572
2018 Ben-David U, Siranosian B, Ha G, Tang H, Oren Y, Hinohara K, Strathdee CA, Dempster J, Lyons NJ, Burns R, Nag A, Kugener G, Cimini B, Tsvetkov P, Maruvka YE, ... ... Beroukhim R, et al. Genetic and transcriptional evolution alters cancer cell line drug response. Nature. PMID 30089904 DOI: 10.1038/S41586-018-0409-3  0.807
2018 Chapuy B, Stewart C, Dunford AJ, Kim J, Kamburov A, Redd RA, Lawrence MS, Roemer MGM, Li AJ, Ziepert M, Staiger AM, Wala JA, Ducar MD, Leshchiner I, Rheinbay E, ... ... Beroukhim R, et al. Author Correction: Molecular subtypes of diffuse large B cell lymphoma are associated with distinct pathogenic mechanisms and outcomes. Nature Medicine. PMID 29955182 DOI: 10.1038/S41591-018-0097-4  0.765
2018 Chapuy B, Stewart C, Dunford AJ, Kim J, Kamburov A, Redd RA, Lawrence MS, Roemer MGM, Li AJ, Ziepert M, Staiger AM, Wala JA, Ducar MD, Leshchiner I, Rheinbay E, ... ... Beroukhim R, et al. Publisher Correction: Molecular subtypes of diffuse large B cell lymphoma are associated with distinct pathogenic mechanisms and outcomes. Nature Medicine. PMID 29955181 DOI: 10.1038/S41591-018-0098-3  0.778
2018 Ricketts CJ, De Cubas AA, Fan H, Smith CC, Lang M, Reznik E, Bowlby R, Gibb EA, Akbani R, Beroukhim R, Bottaro DP, Choueiri TK, Gibbs RA, Godwin AK, Haake S, et al. The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma. Cell Reports. 23: 3698. PMID 29925010 DOI: 10.1016/J.Celrep.2018.06.032  0.322
2018 Viswanathan SR, Ha G, Hoff AM, Wala JA, Carrot-Zhang J, Whelan CW, Haradhvala NJ, Freeman SS, Reed SC, Rhoades J, Polak P, Cipicchio M, Wankowicz SA, Wong A, Kamath T, ... ... Beroukhim R, et al. Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing. Cell. PMID 29909985 DOI: 10.1016/J.Cell.2018.05.036  0.814
2018 Forget MA, Haymaker C, Hess KR, Meng YJ, Creasy C, Karpinets TV, Fulbright OJ, Roszik J, Woodman SE, Kim YU, Sakellariou-Thompson D, Bhatta A, Wahl A, Flores E, Thorsen ST, ... ... Beroukhim R, et al. Prospective analysis of adoptive TIL therapy in patients with metastatic melanoma: response, impact of anti-CTLA4, and biomarkers to predict clinical outcome. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 29848573 DOI: 10.1158/1078-0432.Ccr-17-3649  0.317
2018 Wong GS, Zhou J, Liu JB, Wu Z, Xu X, Li T, Xu D, Schumacher SE, Puschhof J, McFarland J, Zou C, Dulak A, Henderson L, Xu P, O'Day E, ... ... Beroukhim R, et al. Targeting wild-type KRAS-amplified gastroesophageal cancer through combined MEK and SHP2 inhibition. Nature Medicine. PMID 29808010 DOI: 10.1038/S41591-018-0022-X  0.657
2018 Chapuy B, Stewart C, Dunford AJ, Kim J, Kamburov A, Redd RA, Lawrence MS, Roemer MGM, Li AJ, Ziepert M, Staiger AM, Wala JA, Ducar MD, Leshchiner I, Rheinbay E, ... ... Beroukhim R, et al. Molecular subtypes of diffuse large B cell lymphoma are associated with distinct pathogenic mechanisms and outcomes. Nature Medicine. PMID 29713087 DOI: 10.1038/S41591-018-0016-8  0.804
2018 Filbin MG, Tirosh I, Hovestadt V, Shaw ML, Escalante LE, Mathewson ND, Neftel C, Frank N, Pelton K, Hebert CM, Haberler C, Yizhak K, Gojo J, Egervari K, Mount C, ... ... Beroukhim R, et al. Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq. Science (New York, N.Y.). 360: 331-335. PMID 29674595 DOI: 10.1126/Science.Aao4750  0.689
2018 Taylor AM, Shih J, Ha G, Gao GF, Zhang X, Berger AC, Schumacher SE, Wang C, Hu H, Liu J, Lazar AJ, Cherniack AD, Beroukhim R, Meyerson M. Genomic and Functional Approaches to Understanding Cancer Aneuploidy. Cancer Cell. PMID 29622463 DOI: 10.1016/J.Ccell.2018.03.007  0.668
2018 Ricketts CJ, De Cubas AA, Fan H, Smith CC, Lang M, Reznik E, Bowlby R, Gibb EA, Akbani R, Beroukhim R, Bottaro DP, Choueiri TK, Gibbs RA, Godwin AK, Haake S, et al. The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma. Cell Reports. 23: 313-326.e5. PMID 29617669 DOI: 10.1016/J.Celrep.2018.03.075  0.398
2018 Wala JA, Bandopadhayay P, Greenwald N, O'Rourke R, Sharpe T, Stewart C, Schumacher S, Li Y, Weischenfeldt J, Yao X, Nusbaum C, Campbell P, Getz G, Meyerson M, Zhang CZ, ... ... Beroukhim R, et al. SvABA: genome-wide detection of structural variants and indels by local assembly. Genome Research. PMID 29535149 DOI: 10.1101/Gr.221028.117  0.818
2018 Aldape K, Amin SB, Ashley DM, Barnholtz-Sloan JS, Bates AJ, Beroukhim R, Bock C, Brat DJ, Claus EB, Costello JF, de Groot JF, Finocchiaro G, French PJ, Gan HK, Griffith B, et al. Glioma Through the Looking GLASS: Molecular Evolution of Diffuse Gliomas and the Glioma Longitudinal AnalySiS Consortium. Neuro-Oncology. PMID 29432615 DOI: 10.1093/Neuonc/Noy020  0.398
2018 Hong AL, Tseng Y, Kynnap BD, Doshi MB, Wala J, Sandoval G, Church AJ, Mullen E, Kadoch C, Roberts CWM, Beroukhim R, Boehm JS, Hahn WC. Abstract B18: Modeling renal medullary carcinomas identifies druggable vulnerabilities in SMARCB1-deficient cancers Cancer Research. 78. DOI: 10.1158/1538-7445.Pedca17-B18  0.736
2018 Nichols CA, Paolella BR, Gibson WJ, Brown MS, Urbanski LM, Kosmicki JA, Busanovich JP, Berger AC, Gao GF, Cherniack AD, Beroukhim R. Abstract 3003: Loss of heterozygosity of essential genes represents a novel class of cancer vulnerabilities Cancer Research. 78: 3003-3003. DOI: 10.1158/1538-7445.Am2018-3003  0.815
2018 Taylor AM, Zhang X, Shih J, Ha G, Gao GF, Berger AC, Cherniack AD, Beroukhim R, Meyerson M. Abstract 3002: Genome engineering approaches to generate models of chromosome arm-level cancer aneuploidy Cancer Research. 78: 3002-3002. DOI: 10.1158/1538-7445.Am2018-3002  0.633
2018 Dentro S, Leshchiner I, Haase K, Wintersinger J, Deshwar A, Tarabichi M, Rubanova Y, Yu K, García IV, Macintyre G, Kleinheinz K, Livitz D, Malikic S, Donmez N, Sengupta S, ... ... Beroukhim R, et al. Abstract 3000: Pervasive intra-tumour heterogeneity and subclonal selection across cancer types Cancer Research. 78: 3000-3000. DOI: 10.1158/1538-7445.Am2018-3000  0.454
2018 Dharia NV, Malone C, Iniguez AB, Guenther L, Chen L, Alexe G, Durbin AD, Zimmerman MW, Hong A, Bandopadhayay P, Filbin MG, Howard T, Paolella B, Fung I, Lee J, ... ... Beroukhim R, et al. Abstract 2352: Defining a pediatric cancer dependency map Cancer Research. 78: 2352-2352. DOI: 10.1158/1538-7445.Am2018-2352  0.814
2018 Jolly C, Gerstung M, Leshchiner I, Dentro SC, Gonzalez S, Mitchell TJ, Rubanova Y, Anur P, Rosebrock D, Yu K, Tarabichi M, Deshwar A, Wintersinger J, Kleinheinz K, Vásquez-García I, ... ... Beroukhim R, et al. Abstract 218: The evolutionary history of 2,658 cancers Cancer Research. 78: 218-218. DOI: 10.1158/1538-7445.Am2018-218  0.475
2018 Ben-David U, Siranosian B, Ha G, Tang H, Lyons NJ, Burns R, Nag A, Cimini B, Tsvetkov P, Tubelli AA, Wong B, Thorner AR, Bittker J, Meyerson M, Beroukhim R, et al. Abstract 214: Genetic and transcriptional instability alters cell line drug response Cancer Research. 78: 214-214. DOI: 10.1158/1538-7445.Am2018-214  0.777
2018 Ben-David U, Ha G, Tseng Y, Greenwald NF, Oh C, Shih J, McFarland JM, Wong B, Boehm JS, Beroukhim R, Golub TR. Abstract 1028: Patient-derived xenografts undergo mouse-specific tumor evolution Tumor Biology. DOI: 10.1158/1538-7445.Am2018-1028  0.671
2018 Ferrer-Luna R, Ramkissoon SH, Ramkissoon LA, Pellton K, Schumacher SE, Lamothe R, Cheah JH, Haidar S, Kang YJ, Knoff DS, Maire CL, Olausson KH, Song W, Idbaih A, Rinne ML, ... ... Beroukhim R, et al. Abstract B077: Comprehensive molecular characterization and high-throughput chemical screening identifies genetic dependencies and molecular vulnerabilities in glioblastoma cell line models Molecular Cancer Therapeutics. 17. DOI: 10.1158/1535-7163.Targ-17-B077  0.552
2018 Pagès M, Rotem D, Gydush G, Reed S, Rhoades J, Ha G, Lo C, Tracy A, Jones R, Becker S, Haller M, Chi S, Kieran M, Goumnerova L, Love C, ... ... Beroukhim R, et al. Gene-07. Liquid Biopsy Detection Of Genomic Alterations In Pediatric Brain Tumors From Cell-Free Dna In Peripheral Blood, Csf, And Urine Neuro-Oncology. 20. DOI: 10.1093/Neuonc/Noz036.078  0.619
2018 Blandin A, Graham M, Ramkissoon S, Ramkissoon L, Pelton K, Pages M, Jones R, Becker S, Watkinson F, Schoolcraft K, Haemels V, Goumnerova L, Chi S, Wright K, Kieran M, ... ... Beroukhim R, et al. Pdtm-06. Alk Amplification And Rearrangements Are Recurrent Targetable Events In Glioblastoma Neuro-Oncology. 20. DOI: 10.1093/Neuonc/Noy148.848  0.558
2018 Touat M, Santagata S, Guillerm E, Bi W, Beuvon F, Mokhtari K, Giry M, Guegan J, Block S, Carpentier A, Delattre J, Sanson M, Duval A, Beroukhim R, Bandopadhayay P, et al. PATH-16. MOLECULAR PATHOLOGY AND CLINICAL CHARACTERISTICS OF MMR DEFICIENCY (MMRd) IN DIFFUSE GLIOMAS Neuro-Oncology. 20: vi161-vi161. DOI: 10.1093/Neuonc/Noy148.672  0.654
2018 De Smet F, Tseng Y, Ramkissoon S, Ramkissoon L, Pelton K, Luna RF, Panovska D, Schoolcraft K, Watkinson F, Bilton S, Hung V, Chow K, Geduldig J, Becker S, Jones R, ... ... Beroukhim R, et al. TMOD-14. A PATIENT-DERIVED CANCER CELL LINE ATLAS OF PRIMARY AND METASTATIC CENTRAL NERVOUS SYSTEM TUMORS Neuro-Oncology. 20: vi271-vi271. DOI: 10.1093/Neuonc/Noy148.1126  0.696
2018 Reitman Z, Paolella B, Bergthold G, Pelton K, Becker S, Jones R, Herbert Z, Grimmett L, Daley J, Filbin M, Suva M, Goumnerova L, Wright K, Chi S, Kieran M, ... ... Beroukhim R, et al. LGG-13. RESOLVING TRANSCRIPTIONAL PROFILES IN BRAF-REARRANGED PILOCYTIC ASTROCYTOMA USING SINGLE CELL RNA SEQUENCING Neuro-Oncology. 20: i107-i107. DOI: 10.1093/Neuonc/Noy059.355  0.781
2017 Bi WL, Greenwald NF, Abedalthagafi M, Wala J, Gibson WJ, Agarwalla PK, Horowitz P, Schumacher SE, Esaulova E, Mei Y, Chevalier A, A Ducar M, Thorner AR, van Hummelen P, O Stemmer-Rachamimov A, ... ... Beroukhim R, et al. Erratum: Genomic landscape of high-grade meningiomas. Npj Genomic Medicine. 2: 26. PMID 29263836 DOI: 10.1038/S41525-017-0023-6  0.79
2017 Coroller TP, Bi WL, Huynh E, Abedalthagafi M, Aizer AA, Greenwald NF, Parmar C, Narayan V, Wu WW, Miranda de Moura S, Gupta S, Beroukhim R, Wen PY, Al-Mefty O, Dunn IF, et al. Radiographic prediction of meningioma grade by semantic and radiomic features. Plos One. 12: e0187908. PMID 29145421 DOI: 10.1371/Journal.Pone.0187908  0.644
2017 Greenwald NF, Bandopadhayay P, Beroukhim R. Open data: Spot data glitches before publication. Nature. 550: 333. PMID 29052624 DOI: 10.1038/550333C  0.513
2017 Ben-David U, Ha G, Tseng YY, Greenwald NF, Oh C, Shih J, McFarland JM, Wong B, Boehm JS, Beroukhim R, Golub TR. Patient-derived xenografts undergo mouse-specific tumor evolution. Nature Genetics. PMID 28991255 DOI: 10.1038/Ng.3967  0.777
2017 Northcott PA, Buchhalter I, Morrissy AS, Hovestadt V, Weischenfeldt J, Ehrenberger T, Gröbner S, Segura-Wang M, Zichner T, Rudneva VA, Warnatz HJ, Sidiropoulos N, Phillips AH, Schumacher S, Kleinheinz K, ... ... Beroukhim R, et al. The whole-genome landscape of medulloblastoma subtypes. Nature. 547: 311-317. PMID 28726821 DOI: 10.1038/Nature22973  0.44
2017 Bi WL, Greenwald NF, Abedalthagafi M, Wala J, Gibson WJ, Agarwalla PK, Horowitz P, Schumacher SE, Esaulova E, Mei Y, Chevalier A, Ducar M, Thorner AR, van Hummelen P, Stemmer-Rachamimov A, ... ... Beroukhim R, et al. Genomic landscape of high-grade meningiomas. Npj Genomic Medicine. 2. PMID 28713588 DOI: 10.1038/S41525-017-0014-7  0.823
2017 Holst F, Hoivik EA, Gibson WJ, Taylor-Weiner A, Schumacher SE, Asmann YW, Grossmann P, Trovik J, Necela BM, Thompson EA, Meyerson M, Beroukhim R, Salvesen HB, Cherniack AD. Corrigendum: Recurrent hormone-binding domain truncated ESR1 amplifications in primary endometrial cancers suggest their implication in hormone independent growth. Scientific Reports. 7: 46873. PMID 28664899 DOI: 10.1038/srep46873  0.701
2017 Mei Y, Bi WL, Greenwald NF, Agar NY, Beroukhim R, Dunn GP, Dunn IF. Genomic profile of human meningioma cell lines. Plos One. 12: e0178322. PMID 28552950 DOI: 10.1371/Journal.Pone.0178322  0.687
2017 Godlewski J, Ferrer-Luna R, Rooj AK, Mineo M, Ricklefs F, Takeda YS, Nowicki MO, Salińska E, Nakano I, Lee H, Weissleder R, Beroukhim R, Chiocca EA, Bronisz A. MicroRNA Signatures and Molecular Subtypes of Glioblastoma: The Role of Extracellular Transfer. Stem Cell Reports. PMID 28528698 DOI: 10.1016/J.Stemcr.2017.04.024  0.313
2017 Bi WL, Greenwald NF, Ramkissoon SH, Abedalthagafi M, Coy SM, Ligon KL, Mei Y, MacConaill L, Ducar M, Min L, Santagata S, Kaiser UB, Beroukhim R, Laws ER, Dunn IF. Clinical identification of oncogenic drivers and copy number alterations in pituitary tumors. Endocrinology. PMID 28486603 DOI: 10.1210/En.2016-1967  0.693
2017 Schumacher SE, Shim BY, Corso G, Ryu MH, Kang YK, Roviello F, Saksena G, Peng S, Shivdasani RA, Bass AJ, Beroukhim R. Somatic copy number alterations in gastric adenocarcinomas among Asian and Western patients. Plos One. 12: e0176045. PMID 28426752 DOI: 10.1371/Journal.Pone.0176045  0.642
2017 Paolella BR, Gibson WJ, Urbanski LM, Alberta JA, Zack TI, Bandopadhayay P, Nichols CA, Agarwalla PK, Brown MS, Lamothe R, Yu Y, Choi PS, Obeng EA, Heckl D, Wei G, ... ... Beroukhim R, et al. Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability. Elife. 6. PMID 28177281 DOI: 10.7554/Elife.23268  0.822
2017 Ramkissoon SH, Bandopadhayay P, Hwang J, Ramkissoon LA, Greenwald NF, Schumacher SE, O'Rourke R, Pinches N, Ho P, Malkin H, Sinai C, Filbin M, Plant A, Bi WL, Chang MS, ... ... Beroukhim R, et al. Clinical targeted exome-based sequencing in combination with genome-wide copy number profiling: precision medicine analysis of 203 pediatric brain tumors. Neuro-Oncology. PMID 28104717 DOI: 10.1093/Neuonc/Now294  0.714
2017 Paolella BR, Gibson WJ, Urbanski LM, Alberta JA, Zack TI, Bandopadhayay P, Nichols CA, Agarwalla PK, Brown MS, Lamothe R, Yu Y, Choi PS, Obeng EA, Heckl D, Wei G, ... ... Beroukhim R, et al. Author response: Copy-number and gene dependency analysis reveals partial copy loss of wild-type SF3B1 as a novel cancer vulnerability Elife. DOI: 10.7554/Elife.23268.025  0.806
2017 Chapuy B, Stewart C, Dunford A, Kim J, Kamburow A, Redd RA, Lawrence M, Roemer MGM, Li A, Ziepert M, Staiger AM, Wala J, Ducar MD, Leshchiner I, Rheinbay E, ... ... Beroukhim R, et al. Genetically-Defined Diffuse Large B-Cell Lymphoma Subsets Arise By Distinct Pathogenetic Mechanisms and Predict Outcome Blood. 130: 38-38. DOI: 10.1182/Blood.V130.Suppl_1.38.38  0.743
2017 Ferrer-Luna R, Ramkissoon SH, Olausson KH, Ramkissoon LA, Schumacher S, Lamothe R, Cheah JH, Pellton K, Haidar S, Kang YJ, Paolella BR, Maire C, Song W, Meng A, Idbaih A, ... ... Beroukhim R, et al. Abstract 4974: Pharmacogenomic interactions in glioblastoma cell line models Cancer Research. 77: 4974-4974. DOI: 10.1158/1538-7445.Am2017-4974  0.789
2017 Linda Bi W, Greenwald N, Dubuc A, Santagata S, Ligon K, Ligon A, MacConnail L, Beroukhim R, Dunn I. PATH-30. GENOMIC LANDSCAPE OF CENTRAL NERVOUS SYSTEM TUMORS Neuro-Oncology. 19: vi177-vi177. DOI: 10.1093/Neuonc/Nox168.720  0.57
2017 Nayak L, Hays J, Do K, Muzikansky A, Gaffey S, Lee E, Rinne M, Norden A, Beroukhim R, Puduvalli V, Wen P, Doyle LA, Chen H, Shapiro G, Reardon D. Actr-93. A Phase I Study Of Mln0128 (Tak-228) And Bevacizumab In Patients With Advanced Solid Tumors Including Glioblastoma Neuro-Oncology. 19. DOI: 10.1093/Neuonc/Nox168.077  0.311
2017 Bandopadhayay P, Paolella B, O’Rourke R, Ho P, Greenwald N, Sharpira O, Pantel S, Bagul M, Tracy A, Roti G, Balboni A, Vazquez F, Ligon K, Piccioni F, Stegmaier K, ... ... Beroukhim R, et al. TRTH-15. RESISTANCE MECHANISMS TO BET-BROMODOMAIN INHIBITION IN MYC-AMPLIFIED MEDULLOBLASTOMA Neuro-Oncology. 19: iv54-iv55. DOI: 10.1093/Neuonc/Nox083.227  0.737
2017 Rouleau C, Bandopadhayay P, Ramkissoon L, Beroukhim R. Lgg-06. Functional And Therapeutic Relevance Of Myb-Qki-Induced Transcriptional Events To Gliomagenesis. Neuro-Oncology. 19. DOI: 10.1093/Neuonc/Nox083.139  0.539
2017 Paolella B, Bandopadhayay P, Bergthold G, Shalek A, Pelton K, Ramkissoon S, Sinai C, Malkin H, Herbert Z, Sun Y, Alberta J, Brown M, Daley J, Lazo-Kallanian S, Goumnerova L, ... ... Beroukhim R, et al. LGG-05. SINGLE-CELL RNA SEQUENCING OF PEDIATRIC LOW-GRADE GLIOMAS REVEALS INTRATUMORAL HETEROGENEITY Neuro-Oncology. 19: iv33-iv34. DOI: 10.1093/Neuonc/Nox083.138  0.785
2017 Bandopadhayay P, Ramkissoon S, Hwang J, Ramkissoon L, Greenwald N, Schumacher S, O’Rourke R, Pinches N, Ho P, Malkin H, Sinai C, Filbin M, Plant A, Bi W, Chang M, ... ... Beroukhim R, et al. GENE-09. PRECISION MEDICINE ANALYSIS OF 203 PEDIATRIC BRAIN TUMORS REVEALS CLINICALLY RELEVANT GENOMIC ALTERATIONS Neuro-Oncology. 19: iv20-iv20. DOI: 10.1093/Neuonc/Nox083.080  0.726
2017 Bandopadhayay P, Greenwald NF, Wala J, Sharpira O, Tracy A, Filbin M, O’Rourke R, Ho P, Sinai C, Malkin H, Greenspan L, Lawler K, Pelton K, Banerjee A, Becher O, ... ... Beroukhim R, et al. DIPG-29. GENOMIC LANDSCAPE OF DIFFUSE INTRINSIC PONTINE GLIOMA: AN ANALYSIS OF THE DIPG-BATS COHORT Neuro-Oncology. 19: iv11-iv11. DOI: 10.1093/Neuonc/Nox083.044  0.764
2017 Paolella B, Gibson W, Urbanski L, Alberta J, Zack T, Bandopadhayay P, Nichols C, Brown M, Lamothe R, Yu Y, Choi P, Obeng E, Wei G, Wong B, Tsherniak A, ... ... Beroukhim R, et al. BIOL-04. INTEGRATED COPY-NUMBER AND CANCER DEPENDENCY ANALYSIS REVEALS ALTERED SPLICEOSOME STOICHIOMETRY AS A NOVEL VULNERABILITY IN GENOMICALLY DISRUPTED CANCERS Neuro-Oncology. 19: iv4-iv4. DOI: 10.1093/Neuonc/Nox083.012  0.82
2017 Bi WL, Greenwald NF, Abedalthagafi M, Horowitz P, Laws ER, Beroukhim R, Dunn IF. OS10.1 Genomic landscape of pituitary adenomas Neuro-Oncology. 19: iii20-iii20. DOI: 10.1093/Neuonc/Nox036.069  0.785
2017 Bi WL, Greenwald NF, Abedalthagafi M, Agarwalla P, Horowitz P, Santagata S, Al-Mefty O, Beroukhim R, Dunn IF. OS08.3 Genomic landscape of meningiomas Neuro-Oncology. 19: iii16-iii16. DOI: 10.1093/Neuonc/Nox036.053  0.74
2016 Shankar GM, Abedalthagafi M, Vaubel RA, Merrill PH, Nayyar N, Gill CM, Brewster R, Bi WL, Agarwalla PK, Thorner AR, Reardon DA, Al-Mefty O, Wen PY, Alexander BM, van Hummelen P, ... ... Beroukhim R, et al. Germline and somatic BAP1 mutations in high-grade rhabdoid meningiomas. Neuro-Oncology. PMID 28170043 DOI: 10.1093/Neuonc/Now235  0.777
2016 Coroller T, Bi W, Abedalthagafi M, Aizer A, Wu W, Greenwald N, Beroukhim R, Al-Mefty O, Santagata S, Dunn I, Alexander B, Huang R, Aerts H. SU-D-207B-02: Early Grade Classification in Meningioma Patients Combining Radiomics and Semantics Data. Medical Physics. 43: 3348-3349. PMID 28048264 DOI: 10.1118/1.4955670  0.638
2016 Gong Y, Schumacher SE, Wu WH, Tang F, Beroukhim R, Chan TA. Pan-Cancer Analysis Links PARK2 to BCL-XL-Dependent Control of Apoptosis. Neoplasia (New York, N.Y.). 19: 75-83. PMID 28038320 DOI: 10.1016/J.Neo.2016.12.006  0.432
2016 Beroukhim R, Zhang X, Meyerson M. Copy number alterations unmasked as enhancer hijackers. Nature Genetics. 49: 5-6. PMID 28029156 DOI: 10.1038/Ng.3754  0.627
2016 Wala J, Beroukhim R. SeqLib: a C ++ API for rapid BAM manipulation, sequence alignment and sequence assembly. Bioinformatics (Oxford, England). PMID 28011768 DOI: 10.1093/Bioinformatics/Btw741  0.665
2016 Taylor-Weiner A, Zack T, O'Donnell E, Guerriero JL, Bernard B, Reddy A, Han GC, AlDubayan S, Amin-Mansour A, Schumacher SE, Litchfield K, Turnbull C, Gabriel S, Beroukhim R, Getz G, et al. Genomic evolution and chemoresistance in germ-cell tumours. Nature. 540: 114-118. PMID 27905446 DOI: 10.1038/Nature20596  0.791
2016 Dunford A, Weinstock DM, Savova V, Schumacher SE, Cleary JP, Yoda A, Sullivan TJ, Hess JM, Gimelbrant AA, Beroukhim R, Lawrence MS, Getz G, Lane AA. Tumor-suppressor genes that escape from X-inactivation contribute to cancer sex bias. Nature Genetics. PMID 27869828 DOI: 10.1038/Ng.3726  0.405
2016 Gibson WJ, Ruan DT, Paulson VA, Barletta JA, Hanna GJ, Kraft S, Calles A, Nehs MA, Moore FD, Taylor-Weiner A, Wala JA, Zack TI, Lee TC, Fennessy FM, Alexander EK, ... ... Beroukhim R, et al. Genomic heterogeneity and exceptional response to dual pathway inhibition in anaplastic thyroid cancer. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 27797976 DOI: 10.1158/1078-0432.Ccr-16-2154-T  0.806
2016 Agnihotri S, Jalali S, Wilson MR, Danesh A, Li M, Klironomos G, Krieger JR, Mansouri A, Khan O, Mamatjan Y, Landon-Brace N, Tung T, Dowar M, Li T, Bruce JP, ... ... Beroukhim R, et al. The genomic landscape of schwannoma. Nature Genetics. PMID 27723760 DOI: 10.1038/Ng.3688  0.773
2016 Bi WL, Horowtiz P, Greenwald N, Abedalthagafi M, Agarwalla PK, Gibson WJ, Mei Y, Schumacher SE, Ben-David U, Chevalier A, Carter SL, Tiao G, Brastianos PK, Ligon AH, Ducar M, ... ... Beroukhim R, et al. Landscape of genomic alterations in pituitary adenomas. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. PMID 27707790 DOI: 10.1158/1078-0432.Ccr-16-0790  0.791
2016 Ni J, Xie S, Ramkissoon SH, Luu V, Sun Y, Bandopadhayay P, Beroukhim R, Roberts TM, Stiles CD, Segal RA, Ligon KL, Hahn WC, Zhao JJ. Tyrosine receptor kinase B is a drug target in astrocytomas. Neuro-Oncology. PMID 27402815 DOI: 10.1093/Neuonc/Now139  0.577
2016 Gibson WJ, Hoivik EA, Halle MK, Taylor-Weiner A, Cherniack AD, Berg A, Holst F, Zack TI, Werner HM, Staby KM, Rosenberg M, Stefansson IM, Kusonmano K, Chevalier A, Mauland KK, ... ... Beroukhim R, et al. The genomic landscape and evolution of endometrial carcinoma progression and abdominopelvic metastasis. Nature Genetics. PMID 27348297 DOI: 10.1038/Ng.3602  0.841
2016 Holst F, Hoivik EA, Gibson WJ, Taylor-Weiner A, Schumacher SE, Asmann YW, Grossmann P, Trovik J, Necela BM, Thompson EA, Meyerson M, Beroukhim R, Salvesen HB, Cherniack AD. Corrigendum: Recurrent hormone-binding domain truncated ESR1 amplifications in primary endometrial cancers suggest their implication in hormone independent growth. Scientific Reports. 6: 27960. PMID 27338572 DOI: 10.1038/Srep27960  0.721
2016 Miller MB, Bi WL, Ramkissoon LA, Kang YJ, Abedalthagafi M, Knoff DS, Agarwalla PK, Wen PY, Reardon DA, Alexander BM, Laws ER, Dunn IF, Beroukhim R, Ligon KL, Ramkissoon SH. MAPK activation and HRAS mutation identified in pituitary spindle cell oncocytoma. Oncotarget. PMID 27175596 DOI: 10.18632/Oncotarget.9244  0.692
2016 Holst F, Hoivik EA, Gibson WJ, Taylor-Weiner A, Schumacher SE, Asmann YW, Grossmann P, Trovik J, Necela BM, Thompson EA, Meyerson M, Beroukhim R, Salvesen HB, Cherniack AD. Recurrent hormone-binding domain truncated ESR1 amplifications in primary endometrial cancers suggest their implication in hormone independent growth. Scientific Reports. 6: 25521. PMID 27160768 DOI: 10.1038/Srep25521  0.751
2016 Wala J, Zhang CZ, Meyerson M, Beroukhim R. VariantBam: filtering and profiling of next-generational sequencing data using region-specific rules. Bioinformatics (Oxford, England). PMID 27153727 DOI: 10.1093/Bioinformatics/Btw111  0.764
2016 Kim JW, Botvinnik OB, Abudayyeh O, Birger C, Rosenbluh J, Shrestha Y, Abazeed ME, Hammerman PS, DiCara D, Konieczkowski DJ, Johannessen CM, Liberzon A, Alizad-Rahvar AR, Alexe G, Aguirre A, ... ... Beroukhim R, et al. Characterizing genomic alterations in cancer by complementary functional associations. Nature Biotechnology. PMID 27088724 DOI: 10.1038/Nbt.3527  0.836
2016 Wala J, Beroukhim R. CANCER. The oncogene makes its escape. Science (New York, N.Y.). 351: 1398-9. PMID 27013717 DOI: 10.1126/Science.Aaf5542  0.748
2016 Bi WL, Mei Y, Agarwalla PK, Beroukhim R, Dunn IF. Genomic and Epigenomic Landscape in Meningioma. Neurosurgery Clinics of North America. 27: 167-79. PMID 27012381 DOI: 10.1016/J.Nec.2015.11.009  0.675
2016 Dodgshun AJ, SantaCruz N, Hwang J, Ramkissoon SH, Malkin H, Bergthold G, Manley P, Chi S, MacGregor D, Goumnerova L, Sullivan M, Ligon K, Beroukhim R, Herrington B, Kieran MW, et al. Disseminated glioneuronal tumors occurring in childhood: treatment outcomes and BRAF alterations including V600E mutation. Journal of Neuro-Oncology. PMID 26994902 DOI: 10.1007/S11060-016-2109-X  0.81
2016 Bandopadhayay P, Ramkissoon LA, Jain P, Bergthold G, Wala J, Zeid R, Schumacher SE, Urbanski L, O'Rourke R, Gibson WJ, Pelton K, Ramkissoon SH, Han HJ, Zhu Y, Choudhari N, ... ... Beroukhim R, et al. MYB-QKI rearrangements in angiocentric glioma drive tumorigenicity through a tripartite mechanism. Nature Genetics. PMID 26829751 DOI: 10.1038/Ng.3500  0.815
2016 Abedalthagafi M, Bi WL, Aizer AA, Merrill PH, Brewster R, Agarwalla PK, Listewnik ML, Dias-Santagata D, Thorner AR, Van Hummelen P, Brastianos PK, Reardon DA, Wen PY, Al-Mefty O, Ramkissoon SH, ... ... Beroukhim R, et al. Oncogenic PI3K mutations are as common as AKT1 and SMO mutations in meningioma. Neuro-Oncology. PMID 26826201 DOI: 10.1093/Neuonc/Nov316  0.66
2016 Ceccarelli M, Barthel FP, Malta TM, Sabedot TS, Salama SR, Murray BA, Morozova O, Newton Y, Radenbaugh A, Pagnotta SM, Anjum S, Wang J, Manyam G, Zoppoli P, Ling S, ... ... Beroukhim R, et al. Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma. Cell. 164: 550-563. PMID 26824661 DOI: 10.1016/J.Cell.2015.12.028  0.648
2016 Diamandis P, Ferrer-Luna R, Huang RY, Folkerth RD, Ligon AH, Wen PY, Beroukhim R, Ligon KL, Ramkissoon SH. Case Report: Next generation sequencing identifies a NAB2-STAT6 fusion in Glioblastoma. Diagnostic Pathology. 11: 13. PMID 26817999 DOI: 10.1186/S13000-016-0455-9  0.458
2016 Bi WL, Abedalthagafi M, Horowitz P, Agarwalla PK, Mei Y, Aizer AA, Brewster R, Dunn GP, Al-Mefty O, Alexander BM, Santagata S, Beroukhim R, Dunn IF. Genomic landscape of intracranial meningiomas. Journal of Neurosurgery. 1-11. PMID 26771848 DOI: 10.3171/2015.6.Jns15591  0.762
2016 Nayak L, Hays JL, Muzikansky A, Gaffey SC, Do KT, Puduvalli VK, Lee EQ, Rinne ML, Norden AD, Beroukhim R, Wen PY, Doyle LA, Chen HX, Shapiro G, Reardon DA. A phase I study of MLN0128 and bevacizumab in patients with recurrent glioblastoma and other solid tumors. Journal of Clinical Oncology. 34: 2013-2013. DOI: 10.1200/Jco.2016.34.15_Suppl.2013  0.322
2016 Gibson WJ, Ruan DT, Paulson VA, Barletta JA, Hanna GJ, Kraft S, Calles A, Nehs M, Moore F, Taylor-Weiner A, Wala J, Zack T, Lee T, Fennessy F, Alexander E, ... ... Beroukhim R, et al. Abstract LB-227: Truncal activating MAPK and PI3K pathway alterations and exceptional response to dual pathway inhibition in anaplastic thyroid cancer Cancer Research. 76. DOI: 10.1158/1538-7445.Am2016-Lb-227  0.829
2016 Ramkissoon L, Bandopadhayay P, Jain P, Bergthold G, Resnick A, Beroukhim R, Ligon K. Abstract 4372: MYB-QKI rearrangements in angiocentric glioma drive tumorigenicity through a tripartite mechanism Cancer Research. 76: 4372-4372. DOI: 10.1158/1538-7445.Am2016-4372  0.821
2016 Paolella BR, Gibson WJ, Urbanski LM, Alberta JA, Zack TI, Bandopadhayay P, Nichols CA, Agarwalla PK, Brown MS, Lamothe R, Yu Y, Choi PS, Obeng EA, Heckl D, Ebert BL, ... ... Beroukhim R, et al. Abstract 4369: Genome-wide copy number dependency analysis identifies partial copy loss of SF3B1 as a novel cancer vulnerability Cancer Research. 76: 4369-4369. DOI: 10.1158/1538-7445.Am2016-4369  0.821
2016 Agnihotri S, Wilson M, Jalali S, Danesh A, Li M, Klironomos G, Krieger J, Mansouri A, Khan O, Yasin M, Tonge P, Agarwalla PK, Bi WL, Dunn I, Beroukhim R, et al. GENT-36. THE GENOMIC LANDSCAPE OF SCHWANNOMA Neuro-Oncology. 18: vi81-vi82. DOI: 10.1093/Neuonc/Now212.342  0.727
2016 Kieran MW, Sun Y, Pilarz C, Calligaris D, Chadwick EJ, Alberta JA, Ramkissoon SH, Ramkissoon LA, Garcia VM, Wilkinson K, Kane M, Goumnerova L, Chi SN, Manley P, Wright KD, ... ... Beroukhim R, et al. LG-47TYPE II RAF INHIBITORS INHIBIT BRAF MUTATIONS AND TRUNCATED FUSIONS IN PEDIATRIC LOW-GRADE GLIOMAS Neuro-Oncology. 18: iii89.2-iii89. DOI: 10.1093/Neuonc/Now075.47  0.688
2016 Bergthold G, Bandopadhayay P, Ramkissoon L, Jain P, Wala J, Schumacher S, Ramkissoon S, Varlet P, Pages M, Ducar M, Van Hummelen P, Bowers D, Giannini C, Puget S, Hawkins C, ... ... Beroukhim R, et al. LG-02MYB-QKI REARRANGEMENTS IN ANGIOCENTRIC GLIOMA DRIVE TUMORIGENICITY THROUGH A TRIPARTITE MECHANISM Neuro-Oncology. 18: iii78.2-iii78. DOI: 10.1093/Neuonc/Now075.02  0.776
2016 Wright KD, Bandopadhayay P, Gourmnerova L, Chi SN, Manley P, Marcus K, Kannan G, Banerjee A, Becher O, Bendel A, Bowers D, Bredlau A, Cohen K, Comito M, Elster JD, ... ... Beroukhim R, et al. HG-73SAFETY AND FEASIBILITY OF A MULTI-INSTITUTIONAL PHASE II TRIAL INCOPORATING BIOPSY AND MOLECULARLY DETERMINED TREATMENT OF CHILDREN AND YOUNG ADULTS WITH NEWLY DIAGNOSED DIFFUSE INTRINSIC PONTINE GLIOMAS (DIPG) Neuro-Oncology. 18: iii65.1-iii65. DOI: 10.1093/Neuonc/Now073.69  0.532
2016 Bandopadhayay P, Ramkissoon S, Hwang J, Ramkissoon L, Dubuc A, Schumacher S, Janeway K, Pinches N, Malkin H, Sinai C, Manley P, Wright K, Filbin M, Goumnerova L, Alexandrescu S, ... ... Beroukhim R, et al. Ept-20Clinical Targeted Exome-Based Sequencing In Combination With Genome Wide Copy Number Profiling: A Clia Certified Approach For Precision Medicine In 203 Pediatric Brain Tumor Patients Neuro-Oncology. 18. DOI: 10.1093/Neuonc/Now069.19  0.639
2016 Bi W, Horowitz P, Mei Y, Abedalthagafi M, Agarwalla P, Santagata S, Laws E, Beroukhim R, Dunn I. Genomic Landscape of Pituitary Adenomas Journal of Neurological Surgery Part B: Skull Base. 77. DOI: 10.1055/S-0036-1579880  0.737
2016 Agarwalla P, Bi W, Gibson W, Ramkissoon S, Schumacher S, Wala J, Biggs M, Stemmer-Rachamimov A, Barker F, Martuza R, Horowitz P, Dunn I, Beroukhim R. Next-Generation Sequencing of Sporadic Schwannomas Reveals Critical Importance of NF2 Alteration Journal of Neurological Surgery Part B: Skull Base. 77. DOI: 10.1055/S-0036-1579807  0.779
2015 Neupane M, Clark AP, Landini S, Birkbak NJ, Eklund AC, Lim E, Culhane AC, Barry WT, Schumacher SE, Beroukhim R, Szallasi Z, Vidal M, Hill DE, Silver DP. MECP2 Is a Frequently Amplified Oncogene with a Novel Epigenetic Mechanism that Mimics the Role of Activated RAS in Malignancy. Cancer Discovery. PMID 26546296 DOI: 10.1158/2159-8290.Cd-15-0341  0.387
2015 Linehan WM, Spellman PT, Ricketts CJ, Creighton CJ, Fei SS, Davis C, Wheeler DA, Murray BA, Schmidt L, Vocke CD, Peto M, Al Mamun AA, Shinbrot E, Sethi A, Brooks S, ... ... Beroukhim R, et al. Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma. The New England Journal of Medicine. PMID 26536169 DOI: 10.1056/Nejmoa1505917  0.579
2015 Bandopadhayay P, Silvera VM, Ciarlini PD, Malkin H, Bi WL, Bergthold G, Faisal AM, Ullrich NJ, Marcus K, Scott RM, Beroukhim R, Manley PE, Chi SN, Ligon KL, Goumnerova LC, et al. Myxopapillary ependymomas in children: imaging, treatment and outcomes. Journal of Neuro-Oncology. PMID 26468139 DOI: 10.1007/S11060-015-1955-2  0.778
2015 Brastianos PK, Carter SL, Santagata S, Cahill DP, Taylor-Weiner A, Jones RT, Van Allen EM, Lawrence MS, Horowitz PM, Cibulskis K, Ligon KL, Tabernero J, Seoane J, Martinez-Saez E, Curry WT, ... ... Beroukhim R, et al. Genomic Characterization of Brain Metastases Reveals Branched Evolution and Potential Therapeutic Targets. Cancer Discovery. PMID 26410082 DOI: 10.1158/2159-8290.Cd-15-0369  0.785
2015 Elvers I, Turner-Maier J, Swofford R, Koltookian M, Johnson J, Stewart C, Zhang CZ, Schumacher SE, Beroukhim R, Rosenberg M, Thomas R, Mauceli E, Getz G, di Palma F, Modiano JF, et al. Exome sequencing of lymphomas from three dog breeds reveals somatic mutation patterns reflecting genetic background. Genome Research. PMID 26377837 DOI: 10.1101/Gr.194449.115  0.396
2015 Aizer AA, Abedalthagafi M, Linda Bi W, Horvath MC, Arvold ND, Al-Mefty O, Lee EQ, Nayak L, Rinne ML, Norden AD, Reardon DA, Wen PY, Ligon KL, Ligon AH, Beroukhim R, et al. A prognostic cytogenetic scoring system to guide the adjuvant management of patients with atypical meningioma. Neuro-Oncology. PMID 26323607 DOI: 10.1093/Neuonc/Nov177  0.471
2015 Aizer AA, Bi WL, Kandola MS, Lee EQ, Nayak L, Rinne ML, Norden AD, Beroukhim R, Reardon DA, Wen PY, Al-Mefty O, Arvold ND, Dunn IF, Alexander BM. Extent of resection and overall survival for patients with atypical and malignant meningioma. Cancer. PMID 26308667 DOI: 10.1002/Cncr.29639  0.623
2015 Park E, Kim N, Ficarro SB, Zhang Y, Lee BI, Cho A, Kim K, Park AK, Park WY, Murray B, Meyerson M, Beroukhim R, Marto JA, Cho J, Eck MJ. Structure and mechanism of activity-based inhibition of the EGF receptor by Mig6. Nature Structural & Molecular Biology. 22: 703-11. PMID 26280531 DOI: 10.1038/Nsmb.3074  0.574
2015 Brat DJ, Verhaak RG, Aldape KD, Yung WK, Salama SR, Cooper LA, Rheinbay E, Miller CR, Vitucci M, Morozova O, Robertson AG, Noushmehr H, Laird PW, Cherniack AD, ... ... Beroukhim R, et al. Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. The New England Journal of Medicine. 372: 2481-98. PMID 26061751 DOI: 10.1056/Nejmoa1402121  0.795
2015 Rahman R, Catalano PJ, Reardon DA, Norden AD, Wen PY, Lee EQ, Nayak L, Beroukhim R, Dunn IF, Golby AJ, Johnson MD, Chiocca EA, Claus EB, Alexander BM, Arvold ND. Incidence, risk factors, and reasons for hospitalization among glioblastoma patients receiving chemoradiation. Journal of Neuro-Oncology. 124: 137-46. PMID 26033544 DOI: 10.1007/S11060-015-1820-3  0.45
2015 Abedalthagafi MS, Bi WL, Merrill PH, Gibson WJ, Rose MF, Du Z, Francis JM, Du R, Dunn IF, Ligon AH, Beroukhim R, Santagata S. ARID1A and TERT promoter mutations in dedifferentiated meningioma. Cancer Genetics. 208: 345-50. PMID 25963524 DOI: 10.1016/J.Cancergen.2015.03.005  0.792
2015 Bergthold G, Bandopadhayay P, Hoshida Y, Ramkissoon S, Ramkissoon L, Rich B, Maire CL, Paolella BR, Schumacher SE, Tabak B, Ferrer-Luna R, Ozek M, Sav A, Santagata S, Wen PY, ... ... Beroukhim R, et al. Expression profiles of 151 pediatric low-grade gliomas reveal molecular differences associated with location and histological subtype. Neuro-Oncology. PMID 25825052 DOI: 10.1093/Neuonc/Nov045  0.814
2015 Ramkissoon SH, Bi WL, Schumacher SE, Ramkissoon LA, Haidar S, Knoff D, Dubuc A, Brown L, Burns M, Cryan JB, Abedalthagafi M, Kang YJ, Schultz N, Reardon DA, Lee EQ, ... ... Beroukhim R, et al. Clinical implementation of integrated whole-genome copy number and mutation profiling for glioblastoma. Neuro-Oncology. PMID 25754088 DOI: 10.1093/Neuonc/Nov015  0.658
2015 Majumder B, Baraneedharan U, Thiyagarajan S, Radhakrishnan P, Narasimhan H, Dhandapani M, Brijwani N, Pinto DD, Prasath A, Shanthappa BU, Thayakumar A, Surendran R, Babu GK, Shenoy AM, Kuriakose MA, ... ... Beroukhim R, et al. Predicting clinical response to anticancer drugs using an ex vivo platform that captures tumour heterogeneity. Nature Communications. 6: 6169. PMID 25721094 DOI: 10.1038/Ncomms7169  0.76
2015 Baratta MG, Schinzel AC, Zwang Y, Bandopadhayay P, Bowman-Colin C, Kutt J, Curtis J, Piao H, Wong LC, Kung AL, Beroukhim R, Bradner JE, Drapkin R, Hahn WC, Liu JF, et al. An in-tumor genetic screen reveals that the BET bromodomain protein, BRD4, is a potential therapeutic target in ovarian carcinoma. Proceedings of the National Academy of Sciences of the United States of America. 112: 232-7. PMID 25535366 DOI: 10.1073/Pnas.1422165112  0.714
2015 Berg A, Hoivik EA, Mjøs S, Holst F, Werner HM, Tangen IL, Taylor-Weiner A, Gibson WJ, Kusonmano K, Wik E, Trovik J, Halle MK, Øyan AM, Kalland KH, Cherniack AD, ... Beroukhim R, et al. Molecular profiling of endometrial carcinoma precursor, primary and metastatic lesions suggests different targets for treatment in obese compared to non-obese patients. Oncotarget. 6: 1327-39. PMID 25415225 DOI: 10.18632/Oncotarget.2675  0.631
2015 Shen RR, Zhou AY, Kim E, O'Connell JT, Hagerstrand D, Beroukhim R, Hahn WC. TRAF2 is an NF-κB-activating oncogene in epithelial cancers. Oncogene. 34: 209-16. PMID 24362534 DOI: 10.1038/Onc.2013.543  0.43
2015 Babu KG, Majumder B, Thiyagarajan S, Ulaganathan B, Surindran R, Shenoy A, Kuriakose MA, Loda M, Beroukhim R, Horowitz P, Agarwal S, Radhakrishnan P, Sundaram M, Sengupta S, Majumder PK. Application of a robust and novel ex vivo platform mimicking patient heterogenous tumor microenvironment for personalized cancer treatment. Journal of Clinical Oncology. 33: 6029-6029. DOI: 10.1200/Jco.2015.33.15_Suppl.6029  0.593
2015 Dunford A, Schumacher SE, Savova V, Gimelbrant AA, Beroukhim R, Lawrence MS, Getz G, Weinstock DM, Lane AA. Escape from X-Inactivation Tumor Suppressor (EXITS) Genes Are Associated with Excess Incidence of Cancer in Men Blood. 126: 3665-3665. DOI: 10.1182/Blood.V126.23.3665.3665  0.395
2015 Brastianos PK, Carter SL, Santagata S, Taylor-Weiner A, Jones RT, Allen EV, Ligon KL, Tabernero J, Seoane J, Martinez-Saez E, Cahill D, Curry WT, Dunn IF, Paek SH, Hummelen PV, ... ... Beroukhim R, et al. Abstract 4727: Genomic characterization of brain metastases reveals divergent evolution and metastasis specific mutations Brain. 75: 4727-4727. DOI: 10.1158/1538-7445.Am2015-4727  0.737
2015 Ferrer-Luna R, Ramkissoon SH, Ramkissoon LA, Lamothe R, Cheah JH, Schumacher SE, Haidar S, Clemons PA, Shamji A, Ligon KL, Beroukhim R. Abstract B66: Identification of genetic and non-genetic dependencies in glioblastoma cell lines targeted by small molecules Molecular Cancer Therapeutics. 14. DOI: 10.1158/1535-7163.Targ-15-B66  0.453
2015 Bi WL, Horowitz P, Agarwalla PK, Abedalthagafi M, Gibson WJ, Santagata S, Laws ER, Beroukhim R, Dunn IF. GENO-09LANDSCAPE OF GENOMIC ALTERATIONS IN PITUITARY ADENOMAS Neuro-Oncology. 17: v93.1-v93. DOI: 10.1093/Neuonc/Nov215.09  0.835
2015 Nayak L, Hays J, Muzikansky A, Gaffey S, Do K, Hilton J, Lee E, Rinne M, Norden A, Beroukhim R, Puduvalli V, Wen P, Doyle LA, Chen H, Shapiro G, et al. Atnt-18A Phase I Study Of Mln0128 And Bevacizumab In Patients With Recurrent Glioblastoma And Other Solid Tumors Neuro-Oncology. 17. DOI: 10.1093/Neuonc/Nov205.18  0.318
2015 Linda Bi W, Abedalthagafi M, Mei Y, Alexander B, Beroukhim R, Ligon A, Santagata S, Al-Mefty O, Dunn I. Genetic Alterations in Skull Base Meningiomas Journal of Neurological Surgery Part B: Skull Base. 76. DOI: 10.1055/S-0035-1546562  0.55
2015 Park E, Kim N, Ficarro SB, Zhang Y, Lee BI, Cho A, Kim K, Park AKJ, Park WY, Murray B, Meyerson M, Beroukhim R, Marto JA, Cho J, Eck MJ. Structure and mechanism of activity-based inhibition of the EGF receptor by Mig6 Nature Structural and Molecular Biology. DOI: 10.1038/nsmb.3074  0.484
2015 Akbani R, Akdemir KC, Aksoy BA, Albert M, Ally A, Amin SB, Arachchi H, Arora A, Auman JT, Ayala B, Baboud J, Balasundaram M, Balu S, Barnabas N, Bartlett J, ... ... Beroukhim R, et al. Genomic Classification of Cutaneous Melanoma Cell. 161: 1681-1696. DOI: 10.1016/j.cell.2015.05.044  0.471
2014 Deo RC, Musso G, Tasan M, Tang P, Poon A, Yuan C, Felix JF, Vasan RS, Beroukhim R, De Marco T, Kwok PY, MacRae CA, Roth FP. Prioritizing causal disease genes using unbiased genomic features. Genome Biology. 15: 534. PMID 25633252 DOI: 10.1186/S13059-014-0534-8  0.366
2014 Gasser JA, Inuzuka H, Lau AW, Wei W, Beroukhim R, Toker A. SGK3 mediates INPP4B-dependent PI3K signaling in breast cancer. Molecular Cell. 56: 595-607. PMID 25458846 DOI: 10.1016/J.Molcel.2014.09.023  0.361
2014 Abedalthagafi MS, Merrill PH, Bi WL, Jones RT, Listewnik ML, Ramkissoon SH, Thorner AR, Dunn IF, Beroukhim R, Alexander BM, Brastianos PK, Francis JM, Folkerth RD, Ligon KL, Van Hummelen P, et al. Angiomatous meningiomas have a distinct genetic profile with multiple chromosomal polysomies including polysomy of chromosome 5. Oncotarget. 5: 10596-606. PMID 25347344 DOI: 10.18632/Oncotarget.2517  0.683
2014 Cryan JB, Haidar S, Ramkissoon LA, Bi WL, Knoff DS, Schultz N, Abedalthagafi M, Brown L, Wen PY, Reardon DA, Dunn IF, Folkerth RD, Santagata S, Lindeman NI, Ligon AH, ... Beroukhim R, et al. Clinical multiplexed exome sequencing distinguishes adult oligodendroglial neoplasms from astrocytic and mixed lineage gliomas. Oncotarget. 5: 8083-92. PMID 25257301 DOI: 10.18632/Oncotarget.2342  0.693
2014 Hill SJ, Rolland T, Adelmant G, Xia X, Owen MS, Dricot A, Zack TI, Sahni N, Jacob Y, Hao T, McKinney KM, Clark AP, Reyon D, Tsai SQ, Joung JK, ... Beroukhim R, et al. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage. Genes & Development. 28: 1957-75. PMID 25184681 DOI: 10.1101/Gad.241620.114  0.78
2014 Bi WL, Beroukhim R. Beating the odds: extreme long-term survival with glioblastoma. Neuro-Oncology. 16: 1159-60. PMID 25096192 DOI: 10.1093/Neuonc/Nou166  0.583
2014 Tang Y, Gholamin S, Schubert S, Willardson MI, Lee A, Bandopadhayay P, Bergthold G, Masoud S, Nguyen B, Vue N, Balansay B, Yu F, Oh S, Woo P, Chen S, ... ... Beroukhim R, et al. Epigenetic targeting of Hedgehog pathway transcriptional output through BET bromodomain inhibition. Nature Medicine. 20: 732-40. PMID 24973920 DOI: 10.1038/Nm.3613  0.618
2014 Aizer AA, Arvold ND, Catalano P, Claus EB, Golby AJ, Johnson MD, Al-Mefty O, Wen PY, Reardon DA, Lee EQ, Nayak L, Rinne ML, Beroukhim R, Weiss SE, Ramkissoon SH, et al. Adjuvant radiation therapy, local recurrence, and the need for salvage therapy in atypical meningioma. Neuro-Oncology. 16: 1547-53. PMID 24891451 DOI: 10.1093/Neuonc/Nou098  0.439
2014 Gong Y, Zack TI, Morris LG, Lin K, Hukkelhoven E, Raheja R, Tan IL, Turcan S, Veeriah S, Meng S, Viale A, Schumacher SE, Palmedo P, Beroukhim R, Chan TA. Pan-cancer genetic analysis identifies PARK2 as a master regulator of G1/S cyclins. Nature Genetics. 46: 588-94. PMID 24793136 DOI: 10.1038/Ng.2981  0.766
2014 Lee JW, Norden AD, Ligon KL, Golby AJ, Beroukhim R, Quackenbush J, Wells W, Oelschlager K, Maetzold D, Wen PY. Tumor associated seizures in glioblastomas are influenced by survival gene expression in a region-specific manner: a gene expression imaging study. Epilepsy Research. 108: 843-52. PMID 24690158 DOI: 10.1016/J.Eplepsyres.2014.02.021  0.348
2014 Kool M, Jones DT, Jäger N, Northcott PA, Pugh TJ, Hovestadt V, Piro RM, Esparza LA, Markant SL, Remke M, Milde T, Bourdeaut F, Ryzhova M, Sturm D, Pfaff E, ... ... Beroukhim R, et al. Genome sequencing of SHH medulloblastoma predicts genotype-related response to smoothened inhibition. Cancer Cell. 25: 393-405. PMID 24651015 DOI: 10.1016/J.Ccr.2014.02.004  0.791
2014 Bergthold G, Bandopadhayay P, Bi WL, Ramkissoon L, Stiles C, Segal RA, Beroukhim R, Ligon KL, Grill J, Kieran MW. Pediatric low-grade gliomas: how modern biology reshapes the clinical field. Biochimica Et Biophysica Acta. 1845: 294-307. PMID 24589977 DOI: 10.1016/J.Bbcan.2014.02.004  0.809
2014 Bandopadhayay P, Bergthold G, London WB, Goumnerova LC, Morales La Madrid A, Marcus KJ, Guo D, Ullrich NJ, Robison NJ, Chi SN, Beroukhim R, Kieran MW, Manley PE. Long-term outcome of 4,040 children diagnosed with pediatric low-grade gliomas: an analysis of the Surveillance Epidemiology and End Results (SEER) database. Pediatric Blood & Cancer. 61: 1173-9. PMID 24482038 DOI: 10.1002/Pbc.24958  0.777
2014 Weinstein JN, Akbani R, Broom BM, Wang W, Verhaak RGW, McConkey D, Lerner S, Morgan M, Creighton CJ, Smith C, Cherniack AD, Kim J, Pedamallu CS, Noble MS, Al-Ahmadie HA, ... ... Beroukhim R, et al. Comprehensive molecular characterization of urothelial bladder carcinoma Nature. 507: 315-322. PMID 24476821 DOI: 10.1038/Nature12965  0.797
2014 Dunn GP, Cheung HW, Agarwalla PK, Thomas S, Zektser Y, Karst AM, Boehm JS, Weir BA, Berlin AM, Zou L, Getz G, Liu JF, Hirsch M, Vazquez F, Root DE, ... Beroukhim R, et al. In vivo multiplexed interrogation of amplified genes identifies GAB2 as an ovarian cancer oncogene. Proceedings of the National Academy of Sciences of the United States of America. 111: 1102-7. PMID 24385586 DOI: 10.1073/Pnas.1311909111  0.457
2014 Bandopadhayay P, Bergthold G, Nguyen B, Schubert S, Gholamin S, Tang Y, Bolin S, Schumacher SE, Zeid R, Masoud S, Yu F, Vue N, Gibson WJ, Paolella BR, Mitra SS, ... ... Beroukhim R, et al. BET bromodomain inhibition of MYC-amplified medulloblastoma. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 20: 912-25. PMID 24297863 DOI: 10.1158/1078-0432.Ccr-13-2281  0.801
2014 Norden AD, Drappatz J, Phuphanich S, Reardon DA, Wong ET, Plotkin SR, Kaley TJ, Raizer JJ, Lesser GJ, Batchelor T, Lee EQ, Beroukhim R, Muzikansky A, Doherty LM, LaFrankie DC, et al. Phase II study of monthly pasireotide LAR (SOM230C) for recurrent or progressive meningioma: Final results. Journal of Clinical Oncology. 32: 2027-2027. DOI: 10.1200/Jco.2014.32.15_Suppl.2027  0.303
2014 Ramkissoon S, Bi WL, Haidar S, Cryan JB, Reardon DA, Lee EQ, Rinne ML, Norden AD, Nayak L, Russo AL, Arvold ND, Santagata S, Dunn IF, Folkerth RD, Lindeman NI, ... Beroukhim R, et al. Integrative whole-genome copy number analysis and mutation profiling of FFPE brain tumor specimens and potential in designing multi-arm clinical trials. Journal of Clinical Oncology. 32: 11098-11098. DOI: 10.1200/Jco.2014.32.15_Suppl.11098  0.696
2014 Brastianos PK, Carter SL, Santagata S, Taylor-Weiner A, Jones RT, Horowitz PM, Ligon KL, Seaone J, Martinez-Saez E, Tabernero J, Cahill DP, Paek S, Dunn IF, Johnson BE, Choueiri TK, ... ... Beroukhim R, et al. Abstract NG03: Genomic characterization of 101 brain metastases and paired primary tumors reveals patterns of clonal evolution and selection of driver mutations Cancer Research. 74. DOI: 10.1158/1538-7445.Am2014-Ng03  0.707
2014 Brastianos P, Carter S, Santagata S, Taylor-Weiner A, Jones R, Van Allen E, Horowitz P, Ligon K, Cahill D, Dunn I, Van Hummelen P, Lin N, Curry W, Stemmer-Rachamimov A, Beroukhim R, et al. BM-07 * GENOMIC CHARACTERIZATION OF BRAIN METASTASES REVEALS BRANCHED EVOLUTION AND METASTASIS-SPECIFIC MUTATIONS Neuro-Oncology. 16: v33-v33. DOI: 10.1093/Neuonc/Nou240.7  0.7
2014 Cho Y, Tang Y, Schubert S, Willardson M, Bandopadhayay P, Bergthold G, Nguyen B, Masoud S, Vue N, Balansay B, Gholamin S, Cheshier SH, Atwood SX, Whitson RJ, Lee A, ... ... Beroukhim R, et al. EPIGENETIC TARGETING OF HEDGEHOG PATHWAY TRANSCRIPTIONAL OUTPUT Neuro-Oncology. 16: iii25-iii25. DOI: 10.1093/Neuonc/Nou208.9  0.651
2014 Rahman R, Catalano P, Norden A, Wen P, Reardon D, Lee E, Nayak L, Beroukhim R, Dunn I, Golby A, Johnson M, Claus E, Chiocca E, Alexander B, Arvold N. Toxicity, Hospitalization Burden, and Survival Among Glioblastoma Patients Receiving Chemoradiation International Journal of Radiation Oncology*Biology*Physics. 90: S290. DOI: 10.1016/J.Ijrobp.2014.05.982  0.44
2014 Brennan C, Verhaak R, McKenna A, Campos B, Noushmehr H, Salama S, Zheng S, Chakravarty D, Sanborn J, Berman S, Beroukhim R, Bernard B, Wu C, Genovese G, Shmulevich I, et al. The Somatic Genomic Landscape of Glioblastoma Cell. 157: 753. DOI: 10.1016/J.Cell.2014.04.004  0.627
2014 Ramkissoon SH, Bi WL, Schumacher SE, Ramkissoon LA, Haidar S, Dubuc AM, Brown L, Burns M, Cryan J, Reardon DA, Lee EQ, Rinne ML, Norden AD, Nayak L, Ruland S, ... ... Beroukhim R, et al. Integrative Copy Number and Mutational Analysis Improves Glioma Diagnostics Cancer Genetics. 207: 287. DOI: 10.1016/J.Cancergen.2014.06.011  0.648
2014 Cryan JB, Haidar S, Ramkissoon LA, Bi WL, Knoff DS, Schultz N, Abedalthagafi M, Brown L, Wen PY, Reardon DA, Dunn IF, Folkerth RD, Santagata S, Lindeman NI, Ligon AH, ... Beroukhim R, et al. Clinical multiplexed exome sequencing distinguishes adult oligodendroglial neoplasms from astrocytic and mixed lineage gliomas Oncotarget. 5: 8083-8092.  0.478
2014 Abedalthagafi MS, Merrill PH, Bi WL, Jones RT, Listewnik ML, Ramkissoon SH, Thorner AR, Dunn IF, Beroukhim R, Alexander BM, Brastianos PK, Francis JM, Folkerth RD, Ligon KL, Van Hummelen P, et al. Angiomatous meningiomas have a distinct genetic profile with multiple chromosomal polysomies including polysomy of chromosome 5 Oncotarget. 5: 10596-10606.  0.464
2013 Li L, Shen C, Nakamura E, Ando K, Signoretti S, Beroukhim R, Cowley GS, Lizotte P, Liberzon E, Bair S, Root DE, Tamayo P, Tsherniak A, Cheng SC, Tabak B, et al. SQSTM1 is a pathogenic target of 5q copy number gains in kidney cancer. Cancer Cell. 24: 738-50. PMID 24332042 DOI: 10.1016/J.Ccr.2013.10.025  0.36
2013 Brennan CW, Verhaak RG, McKenna A, Campos B, Noushmehr H, Salama SR, Zheng S, Chakravarty D, Sanborn JZ, Berman SH, Beroukhim R, Bernard B, Wu CJ, Genovese G, Shmulevich I, et al. The somatic genomic landscape of glioblastoma. Cell. 155: 462-77. PMID 24120142 DOI: 10.1016/J.Cell.2013.09.034  0.688
2013 Filbin MG, Dabral SK, Pazyra-Murphy MF, Ramkissoon S, Kung AL, Pak E, Chung J, Theisen MA, Sun Y, Franchetti Y, Sun Y, Shulman DS, Redjal N, Tabak B, Beroukhim R, et al. Coordinate activation of Shh and PI3K signaling in PTEN-deficient glioblastoma: new therapeutic opportunities. Nature Medicine. 19: 1518-23. PMID 24076665 DOI: 10.1038/Nm.3328  0.334
2013 Zack TI, Schumacher SE, Carter SL, Cherniack AD, Saksena G, Tabak B, Lawrence MS, Zhsng CZ, Wala J, Mermel CH, Sougnez C, Gabriel SB, Hernandez B, Shen H, Laird PW, ... ... Beroukhim R, et al. Pan-cancer patterns of somatic copy number alteration. Nature Genetics. 45: 1134-40. PMID 24071852 DOI: 10.1038/Ng.2760  0.841
2013 McLaughlin SK, Olsen SN, Dake B, De Raedt T, Lim E, Bronson RT, Beroukhim R, Polyak K, Brown M, Kuperwasser C, Cichowski K. The RasGAP gene, RASAL2, is a tumor and metastasis suppressor. Cancer Cell. 24: 365-78. PMID 24029233 DOI: 10.1016/J.Ccr.2013.08.004  0.423
2013 Hagerstrand D, Tong A, Schumacher SE, Ilic N, Shen RR, Cheung HW, Vazquez F, Shrestha Y, Kim SY, Giacomelli AO, Rosenbluh J, Schinzel AC, Spardy NA, Barbie DA, Mermel CH, ... ... Beroukhim R, et al. Systematic interrogation of 3q26 identifies TLOC1 and SKIL as cancer drivers. Cancer Discovery. 3: 1044-57. PMID 23764425 DOI: 10.1158/2159-8290.Cd-12-0592  0.571
2013 Rinne ML, Lee EQ, Nayak L, Norden AD, Beroukhim R, Wen PY, Reardon DA. Update on bevacizumab and other angiogenesis inhibitors for brain cancer. Expert Opinion On Emerging Drugs. 18: 137-53. PMID 23668489 DOI: 10.1517/14728214.2013.794784  0.352
2013 Ramkissoon LA, Horowitz PM, Craig JM, Ramkissoon SH, Rich BE, Schumacher SE, McKenna A, Lawrence MS, Bergthold G, Brastianos PK, Tabak B, Ducar MD, Van Hummelen P, MacConaill LE, Pouissant-Young T, ... ... Beroukhim R, et al. Genomic analysis of diffuse pediatric low-grade gliomas identifies recurrent oncogenic truncating rearrangements in the transcription factor MYBL1. Proceedings of the National Academy of Sciences of the United States of America. 110: 8188-93. PMID 23633565 DOI: 10.1073/Pnas.1300252110  0.821
2013 Dulak AM, Stojanov P, Peng S, Lawrence MS, Fox C, Stewart C, Bandla S, Imamura Y, Schumacher SE, Shefler E, McKenna A, Carter SL, Cibulskis K, Sivachenko A, Saksena G, ... ... Beroukhim R, et al. Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity. Nature Genetics. 45: 478-86. PMID 23525077 DOI: 10.1038/Ng.2591  0.722
2013 Raeder MB, Birkeland E, Trovik J, Krakstad C, Shehata S, Schumacher S, Zack TI, Krohn A, Werner HM, Moody SE, Wik E, Stefansson IM, Holst F, Oyan AM, Tamayo P, ... ... Beroukhim R, et al. Integrated genomic analysis of the 8q24 amplification in endometrial cancers identifies ATAD2 as essential to MYC-dependent cancers. Plos One. 8: e54873. PMID 23393560 DOI: 10.1371/Journal.Pone.0054873  0.782
2013 Brastianos PK, Horowitz PM, Santagata S, Jones RT, McKenna A, Getz G, Ligon KL, Palescandolo E, Van Hummelen P, Ducar MD, Raza A, Sunkavalli A, Macconaill LE, Stemmer-Rachamimov AO, Louis DN, ... ... Beroukhim R, et al. Genomic sequencing of meningiomas identifies oncogenic SMO and AKT1 mutations. Nature Genetics. 45: 285-9. PMID 23334667 DOI: 10.1038/Ng.2526  0.721
2013 Sia D, Hoshida Y, Villanueva A, Roayaie S, Ferrer J, Tabak B, Peix J, Sole M, Tovar V, Alsinet C, Cornella H, Klotzle B, Fan JB, Cotsoglou C, Thung SN, ... ... Beroukhim R, et al. Integrative molecular analysis of intrahepatic cholangiocarcinoma reveals 2 classes that have different outcomes. Gastroenterology. 144: 829-40. PMID 23295441 DOI: 10.1053/J.Gastro.2013.01.001  0.359
2013 Shao DD, Tsherniak A, Gopal S, Weir BA, Tamayo P, Stransky N, Schumacher SE, Zack TI, Beroukhim R, Garraway LA, Margolin AA, Root DE, Hahn WC, Mesirov JP. ATARiS: computational quantification of gene suppression phenotypes from multisample RNAi screens. Genome Research. 23: 665-78. PMID 23269662 DOI: 10.1101/Gr.143586.112  0.789
2013 Drier Y, Lawrence MS, Carter SL, Stewart C, Gabriel SB, Lander ES, Meyerson M, Beroukhim R, Getz G. Somatic rearrangements across cancer reveal classes of samples with distinct patterns of DNA breakage and rearrangement-induced hypermutability. Genome Research. 23: 228-35. PMID 23124520 DOI: 10.1101/Gr.141382.112  0.687
2013 Pashtan IM, Neuberg DS, Beroukhim R, Salvesen HB, Cherniack A. Distinct copy number alteration patterns as prognostic of endometrial cancer outcomes. Journal of Clinical Oncology. 31: 5511-5511. DOI: 10.1200/Jco.2013.31.15_Suppl.5511  0.366
2013 Alexander BM, Ramkissoon S, Wen PY, Reardon DA, Lee EQ, Rinne M, Norden AD, Nayak L, Ruland S, Doherty LM, LaFrankie DC, Brown LE, Arvold ND, Dunn IF, Santagata S, ... ... Beroukhim R, et al. Combined whole genome copy number genotyping and multiplex somatic mutation profiling of FFPE brain tumor specimens for clinical diagnosis and trial selection. Journal of Clinical Oncology. 31: 2030-2030. DOI: 10.1200/Jco.2013.31.15_Suppl.2030  0.609
2013 Solimini N, Pavlova NN, Mermel C, Xu Q, Burrows AE, Luo J, li M, Beroukhim R, Meyerson M, Elledge SJ. Abstract SY25-03: Haploinsufficiency in cancer: When half simply isn't good enough. Cancer Research. 73. DOI: 10.1158/1538-7445.Am2013-Sy25-03  0.577
2013 Brastianos P, Horowitz PM, Santagata S, Jones RT, McKenna A, Getz G, Ligon K, Hummelen PV, Ducar M, Raza A, Sunkavalli A, MacConaill L, Stemmer-Rachamimov A, Louis DN, Hahn WC, ... ... Beroukhim R, et al. Abstract 803: Genomic sequencing of meningiomas reveals oncogenic SMO and AKT1 mutations. Cancer Research. 73: 803-803. DOI: 10.1158/1538-7445.Am2013-803  0.734
2013 Stojanov P, Carter SL, Rosshandler II, Sivachenko A, Guadarrama AS, Vazquez K, Cordoba SR, Cibulskis K, Sougnez C, Voet D, Saksena G, Lichtenstein L, Zou L, Frazer S, Stewart C, ... Beroukhim R, et al. Abstract 5135: Analysis of formalin-fixed paraffin-embedded (FFPE) samples. Cancer Research. 73: 5135-5135. DOI: 10.1158/1538-7445.Am2013-5135  0.628
2013 Ferrer-Luna R, Ramkissoon S, Cheah J, Lamothe R, Schumacher S, Shamji A, Clemons P, Reardon D, Wen P, Schreiber S, Ligon K, Beroukhim R. Abstract A103: High-throughput genomic and chemical screening in glioblastoma cell lines. Molecular Cancer Therapeutics. 12. DOI: 10.1158/1535-7163.Targ-13-A103  0.539
2013 Ambady P, Holdhoff M, Ferrigno C, Grossman S, Anderson MD, Liu D, Conrad C, Penas-Prado M, Gilbert MR, Yung AWK, Groot Jd, Aoki T, Nishikawa R, Sugiyama K, Nonoguchi N, ... ... Beroukhim R, et al. Neuro/Medical Oncology Neuro-Oncology. 15: 120-120. DOI: 10.1093/Neuonc/Not182  0.558
2013 Creighton CJ, Morgan M, Gunaratne PH, Wheeler DA, Gibbs RA, Robertson G, Chu A, Beroukhim R, Cibulskis K, Signoretti S, Vandin F, Wu HT, Raphael BJ, Verhaak RGW, Tamboli P, et al. Comprehensivemolecular characterization of clear cell renal cell carcinoma Nature. 499: 43-49. DOI: 10.1038/Nature12222  0.545
2013 Rosenbluh J, Nijhawan D, Cox AG, Li X, Neal JT, Schafer EJ, Zack TI, Wang X, Tsherniak A, Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F, Cowley GS, ... ... Beroukhim R, et al. Erratum: β-catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis (Cell (2012) 151 (1457-1473)) Cell. 153: 267-270. DOI: 10.1016/J.Cell.2013.03.007  0.317
2012 Rosenbluh J, Nijhawan D, Cox AG, Li X, Neal JT, Schafer EJ, Zack TI, Wang X, Tsherniak A, Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F, Cowley GS, ... ... Beroukhim R, et al. β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis. Cell. 151: 1457-73. PMID 23245941 DOI: 10.1016/J.Cell.2012.11.026  0.766
2012 Monti S, Chapuy B, Takeyama K, Rodig SJ, Hao Y, Yeda KT, Inguilizian H, Mermel C, Currie T, Dogan A, Kutok JL, Beroukhim R, Neuberg D, Habermann TM, Getz G, et al. Integrative analysis reveals an outcome-associated and targetable pattern of p53 and cell cycle deregulation in diffuse large B cell lymphoma. Cancer Cell. 22: 359-72. PMID 22975378 DOI: 10.1016/J.Ccr.2012.07.014  0.546
2012 Hammerman PS, Voet D, Lawrence MS, Jing R, Cibulskis K, Sivachenko A, Stojanov P, McKenna A, Lander ES, Gabriel S, Getz G, Imielinski M, Helman E, Hernandez B, Pho NH, ... ... Beroukhim R, et al. Comprehensive genomic characterization of squamous cell lung cancers Nature. 489: 519-525. PMID 22960745 DOI: 10.1038/Nature11404  0.671
2012 Nijhawan D, Zack TI, Ren Y, Strickland MR, Lamothe R, Schumacher SE, Tsherniak A, Besche HC, Rosenbluh J, Shehata S, Cowley GS, Weir BA, Goldberg AL, Mesirov JP, Root DE, ... ... Beroukhim R, et al. Cancer vulnerabilities unveiled by genomic loss. Cell. 150: 842-54. PMID 22901813 DOI: 10.1016/J.Cell.2012.07.023  0.793
2012 Northcott PA, Shih DJ, Peacock J, Garzia L, Morrissy AS, Zichner T, Stütz AM, Korshunov A, Reimand J, Schumacher SE, Beroukhim R, Ellison DW, Marshall CR, Lionel AC, Mack S, et al. Subgroup-specific structural variation across 1,000 medulloblastoma genomes. Nature. 488: 49-56. PMID 22832581 DOI: 10.1038/Nature11327  0.611
2012 Rozenblatt-Rosen O, Deo RC, Padi M, Adelmant G, Calderwood MA, Rolland T, Grace M, Dricot A, Askenazi M, Tavares M, Pevzner SJ, Abderazzaq F, Byrdsong D, Carvunis AR, Chen AA, ... ... Beroukhim R, et al. Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature. 487: 491-5. PMID 22810586 DOI: 10.1038/Nature11288  0.464
2012 Dulak AM, Schumacher SE, van Lieshout J, Imamura Y, Fox C, Shim B, Ramos AH, Saksena G, Baca SC, Baselga J, Tabernero J, Barretina J, Enzinger PC, Corso G, Roviello F, ... ... Beroukhim R, et al. Gastrointestinal adenocarcinomas of the esophagus, stomach, and colon exhibit distinct patterns of genome instability and oncogenesis. Cancer Research. 72: 4383-93. PMID 22751462 DOI: 10.1158/0008-5472.Can-11-3893  0.834
2012 Banerji S, Cibulskis K, Rangel-Escareno C, Brown KK, Carter SL, Frederick AM, Lawrence MS, Sivachenko AY, Sougnez C, Zou L, Cortes ML, Fernandez-Lopez JC, Peng S, Ardlie KG, Auclair D, ... ... Beroukhim R, et al. Sequence analysis of mutations and translocations across breast cancer subtypes. Nature. 486: 405-9. PMID 22722202 DOI: 10.1038/Nature11154  0.768
2012 Solimini NL, Xu Q, Mermel CH, Liang AC, Schlabach MR, Luo J, Burrows AE, Anselmo AN, Bredemeyer AL, Li MZ, Beroukhim R, Meyerson M, Elledge SJ. Recurrent hemizygous deletions in cancers may optimize proliferative potential. Science (New York, N.Y.). 337: 104-9. PMID 22628553 DOI: 10.1126/Science.1219580  0.647
2012 Carter SL, Cibulskis K, Helman E, McKenna A, Shen H, Zack T, Laird PW, Onofrio RC, Winckler W, Weir BA, Beroukhim R, Pellman D, Levine DA, Lander ES, Meyerson M, et al. Absolute quantification of somatic DNA alterations in human cancer. Nature Biotechnology. 30: 413-21. PMID 22544022 DOI: 10.1038/Nbt.2203  0.848
2012 Wei G, Margolin AA, Haery L, Brown E, Cucolo L, Julian B, Shehata S, Kung AL, Beroukhim R, Golub TR. Chemical genomics identifies small-molecule MCL1 repressors and BCL-xL as a predictor of MCL1 dependency. Cancer Cell. 21: 547-62. PMID 22516262 DOI: 10.1016/J.Ccr.2012.02.028  0.572
2012 Poduri A, Evrony GD, Cai X, Elhosary PC, Beroukhim R, Lehtinen MK, Hills LB, Heinzen EL, Hill A, Hill RS, Barry BJ, Bourgeois BF, Riviello JJ, Barkovich AJ, Black PM, et al. Somatic activation of AKT3 causes hemispheric developmental brain malformations. Neuron. 74: 41-8. PMID 22500628 DOI: 10.1016/J.Neuron.2012.03.010  0.343
2012 Cheng YK, Beroukhim R, Levine RL, Mellinghoff IK, Holland EC, Michor F. A mathematical methodology for determining the temporal order of pathway alterations arising during gliomagenesis. Plos Computational Biology. 8: e1002337. PMID 22241976 DOI: 10.1371/Journal.Pcbi.1002337  0.421
2012 Shrestha Y, Schafer EJ, Boehm JS, Thomas SR, He F, Du J, Wang S, Barretina J, Weir BA, Zhao JJ, Polyak K, Golub TR, Beroukhim R, Hahn WC. PAK1 is a breast cancer oncogene that coordinately activates MAPK and MET signaling. Oncogene. 31: 3397-408. PMID 22105362 DOI: 10.1038/Onc.2011.515  0.553
2012 Brastianos PK, Horowitz P, Santagata S, Jones RT, McKenna A, Ligon K, Palescandolo E, Van Hummelen P, Getz G, Hahn WC, Dunn IF, Beroukhim R. Genomic characterization of meningiomas. Journal of Clinical Oncology. 30: 2020-2020. DOI: 10.1200/Jco.2012.30.15_Suppl.2020  0.737
2012 Locasale JW, Grassian A, Beroukhim R, Meyerson M, Wagner G, Asara JM, Brugge JS, Vander Heiden MG, Cantley LC. Amplification of phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis Bmc Proceedings. 6. DOI: 10.1186/1753-6561-6-S3-O15  0.411
2012 Chapuy B, Monti S, Takeyama K, Rodig SJ, Hao Y, Yeda KT, Inguilizian H, Mermel C, Currie T, Dogan A, Kutok J, Beroukhim R, Neuberg DS, Habermann TM, Getz G, et al. A Structural Basis for p53-Deficiency, Deregulated Cell Cycle and Unfavorable Outcome in Diffuse Large B-Cell Lymphoma Blood. 120: 1534-1534. DOI: 10.1182/Blood.V120.21.1534.1534  0.565
2012 Solimini NL, Bredemeyer AL, Li MZ, Beroukhim R, Meyerson M, Elledge SJ, Pavlova NN, Xu Q, Mermel CH, Liang AC, Schlabach MR, Luo J, Burrows AE, Anselmo AN. Abstract IA8: Genetic approaches to cancer Cancer Research. 72. DOI: 10.1158/1538-7445.Csb12-Ia8  0.637
2012 Banerji S, Cibulskis K, Rangel-Escareño C, Brown KK, Carter SL, Frederick AM, Lawrence MS, Sivachenko AY, Sougnez C, Zou L, Cortes ML, Fernandez-Lopez JC, Peng S, Ardlie KG, Auclair D, ... ... Beroukhim R, et al. Abstract PL07-01: Molecular profiling of breast cancer in Mexico: Identification of novel therapeutic targets through whole genome sequencing analysis. Cancer Epidemiology, Biomarkers & Prevention. 21. DOI: 10.1158/1055-9965.Disp12-Pl07-01  0.735
2012 Weiss J, Sos ML, Seidel D, Peifer M, Zander T, Heuckmann JM, Ullrich RT, Menon R, Maier S, Soltermann A, Moch H, Wagener P, Fischer F, Heynck S, Koker M, ... ... Beroukhim R, et al. Frequent and focal FGFR1 amplification associates with therapeutically tractable FGFR1 dependency in squamous cell lung cancer (Science Translational Medicine (2012) 4, (130er2)) Science Translational Medicine. 4. DOI: 10.1126/Scitranslmed.3002121  0.334
2012 Koboldt DC, Fulton RS, McLellan MD, Schmidt H, Kalicki-Veizer J, McMichael JF, Fulton LL, Dooling DJ, Ding L, Mardis ER, Wilson RK, Ally A, Balasundaram M, Butterfield YSN, Carlsen R, ... ... Beroukhim R, et al. Comprehensive molecular portraits of human breast tumours Nature. 490: 61-70. DOI: 10.1038/Nature11412  0.644
2011 Quant EC, Batchelor T, Lassman AB, Schiff D, Kaley TJ, Wong E, Mikkelsen T, Drappatz J, Norden AD, Beroukhim R, Weiss SE, Alexander BM, Sceppa C, Gerard M, Hallisey SD, et al. Preliminary results from a multicenter, phase II, randomized, noncomparative clinical trial of radiation and temozolomide with or without vandetanib in newly diagnosed glioblastoma (GBM). Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology. 29: 2069. PMID 28019932 DOI: 10.1200/Jco.2011.29.15_Suppl.2069  0.304
2011 Shen C, Beroukhim R, Schumacher SE, Zhou J, Chang M, Signoretti S, Kaelin WG. Genetic and functional studies implicate HIF1α as a 14q kidney cancer suppressor gene. Cancer Discovery. 1: 222-35. PMID 22037472 DOI: 10.1158/2159-8290.Cd-11-0098  0.419
2011 Liu P, Cheng H, Santiago S, Raeder M, Zhang F, Isabella A, Yang J, Semaan DJ, Chen C, Fox EA, Gray NS, Monahan J, Schlegel R, Beroukhim R, Mills GB, et al. Oncogenic PIK3CA-driven mammary tumors frequently recur via PI3K pathway-dependent and PI3K pathway-independent mechanisms. Nature Medicine. 17: 1116-20. PMID 21822287 DOI: 10.1038/Nm.2402  0.428
2011 Locasale JW, Grassian AR, Melman T, Lyssiotis CA, Mattaini KR, Bass AJ, Heffron G, Metallo CM, Muranen T, Sharfi H, Sasaki AT, Anastasiou D, Mullarky E, Vokes NI, Sasaki M, ... Beroukhim R, et al. Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis. Nature Genetics. 43: 869-74. PMID 21804546 DOI: 10.1038/Ng.890  0.75
2011 Grisanzio C, Seeley A, Chang M, Collins M, Di Napoli A, Cheng SC, Percy A, Beroukhim R, Signoretti S. Orthotopic xenografts of RCC retain histological, immunophenotypic and genetic features of tumours in patients. The Journal of Pathology. 225: 212-21. PMID 21710693 DOI: 10.1002/Path.2929  0.308
2011 Mermel CH, Schumacher SE, Hill B, Meyerson ML, Beroukhim R, Getz G. GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers. Genome Biology. 12: R41. PMID 21527027 DOI: 10.1186/Gb-2011-12-4-R41  0.622
2011 Ceol CJ, Houvras Y, Jane-Valbuena J, Bilodeau S, Orlando DA, Battisti V, Fritsch L, Lin WM, Hollmann TJ, Ferré F, Bourque C, Burke CJ, Turner L, Uong A, Johnson LA, ... Beroukhim R, et al. The histone methyltransferase SETDB1 is recurrently amplified in melanoma and accelerates its onset. Nature. 471: 513-7. PMID 21430779 DOI: 10.1038/Nature09806  0.562
2011 Cheng Y, Beroukhim R, Levine RL, Mellinghoff IK, Holland EC, Michor F. Abstract LB-26: A mathematical methodology for determining the temporal order of pathway alterations in cancer Cancer Research. 71. DOI: 10.1158/1538-7445.Am2011-Lb-26  0.463
2011 Wei G, Margolin A, Brown E, Cucolo L, Stransky N, Barretina J, Garraway L, Beroukhim R. Abstract 13: Chemical genomics identifies MCL1 repressors and resistance mechanism Cancer Research. 71: 13-13. DOI: 10.1158/1538-7445.Am2011-13  0.606
2011 Cheng YK, Beroukhim R, Levine RL, Mellinghoff IK, Michor F. Reply to Parsons: Many tumor types follow the monoclonal model of tumor initiation Proceedings of the National Academy of Sciences of the United States of America. 108: E16. DOI: 10.1073/Pnas.1018584108  0.408
2010 Weiss J, Sos ML, Seidel D, Peifer M, Zander T, Heuckmann JM, Ullrich RT, Menon R, Maier S, Soltermann A, Moch H, Wagener P, Fischer F, Heynck S, Koker M, ... ... Beroukhim R, et al. Frequent and focal FGFR1 amplification associates with therapeutically tractable FGFR1 dependency in squamous cell lung cancer. Science Translational Medicine. 2: 62ra93. PMID 21160078 DOI: 10.1126/Scitranslmed.3001451  0.384
2010 Trovik J, Wik E, Stefansson I, Carter SL, Beroukhim R, Oyan AM, Kalland KH, Akslen LA, Salvesen HB. Stathmin is superior to AKT and phospho-AKT staining for the detection of phosphoinositide 3-kinase activation and aggressive endometrial cancer. Histopathology. 57: 641-6. PMID 20955391 DOI: 10.1111/J.1365-2559.2010.03661.X  0.317
2010 Attolini CS, Cheng YK, Beroukhim R, Getz G, Abdel-Wahab O, Levine RL, Mellinghoff IK, Michor F. A mathematical framework to determine the temporal sequence of somatic genetic events in cancer. Proceedings of the National Academy of Sciences of the United States of America. 107: 17604-9. PMID 20864632 DOI: 10.1073/Pnas.1009117107  0.487
2010 Wen PY, Quant E, Drappatz J, Beroukhim R, Norden AD. Medical therapies for meningiomas. Journal of Neuro-Oncology. 99: 365-78. PMID 20820875 DOI: 10.1007/S11060-010-0349-8  0.307
2010 Barretina J, Taylor BS, Banerji S, Ramos AH, Lagos-Quintana M, Decarolis PL, Shah K, Socci ND, Weir BA, Ho A, Chiang DY, Reva B, Mermel CH, Getz G, Antipin Y, ... Beroukhim R, et al. Subtype-specific genomic alterations define new targets for soft-tissue sarcoma therapy. Nature Genetics. 42: 715-21. PMID 20601955 DOI: 10.1038/Ng.619  0.831
2010 Scheble VJ, Braun M, Beroukhim R, Mermel CH, Ruiz C, Wilbertz T, Stiedl AC, Petersen K, Reischl M, Kuefer R, Schilling D, Fend F, Kristiansen G, Meyerson M, Rubin MA, et al. ERG rearrangement is specific to prostate cancer and does not occur in any other common tumor. Modern Pathology : An Official Journal of the United States and Canadian Academy of Pathology, Inc. 23: 1061-7. PMID 20473283 DOI: 10.1038/Modpathol.2010.87  0.638
2010 Beroukhim R, Mermel CH, Porter D, Wei G, Raychaudhuri S, Donovan J, Barretina J, Boehm JS, Dobson J, Urashima M, Mc Henry KT, Pinchback RM, Ligon AH, Cho YJ, Haery L, et al. The landscape of somatic copy-number alteration across human cancers. Nature. 463: 899-905. PMID 20164920 DOI: 10.1038/Nature08822  0.817
2010 Min J, Zaslavsky A, Fedele G, McLaughlin SK, Reczek EE, De Raedt T, Guney I, Strochlic DE, Macconaill LE, Beroukhim R, Bronson RT, Ryeom S, Hahn WC, Loda M, Cichowski K. An oncogene-tumor suppressor cascade drives metastatic prostate cancer by coordinately activating Ras and nuclear factor-kappaB. Nature Medicine. 16: 286-94. PMID 20154697 DOI: 10.1038/Nm.2100  0.374
2010 Beroukhim R, Meyerson M, Garraway L, Prensner J. Abstract 5759: The landscape of copy-number changes across multiple human cancer types Cancer Research. 70: 5759-5759. DOI: 10.1158/1538-7445.Am10-5759  0.723
2010 Du J, Bernasconi P, He F, Julian B, Mani DR, Margolin A, Ross K, Clauser K, Finn SP, Beroukhim R, Burns M, Peng X, Hieronymus H, Maglathlin R, Lewis TA, et al. Abstract 5559: Proteomic identification of activated, essential tyrosine kinases in human cancers Cancer Research. 70: 5559-5559. DOI: 10.1158/1538-7445.Am10-5559  0.425
2009 Sos ML, Fischer S, Ullrich R, Peifer M, Heuckmann JM, Koker M, Heynck S, Stückrath I, Weiss J, Fischer F, Michel K, Goel A, Regales L, Politi KA, Perera S, ... ... Beroukhim R, et al. Identifying genotype-dependent efficacy of single and combined PI3K- and MAPK-pathway inhibition in cancer. Proceedings of the National Academy of Sciences of the United States of America. 106: 18351-6. PMID 19805051 DOI: 10.1073/Pnas.0907325106  0.62
2009 Bass AJ, Watanabe H, Mermel CH, Yu S, Perner S, Verhaak RG, Kim SY, Wardwell L, Tamayo P, Gat-Viks I, Ramos AH, Woo MS, Weir BA, Getz G, Beroukhim R, et al. SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas. Nature Genetics. 41: 1238-42. PMID 19801978 DOI: 10.1038/Ng.465  0.772
2009 Ramos AH, Dutt A, Mermel C, Perner S, Cho J, Lafargue CJ, Johnson LA, Stiedl AC, Tanaka KE, Bass AJ, Barretina J, Weir BA, Beroukhim R, Thomas RK, Minna JD, et al. Amplification of chromosomal segment 4q12 in non-small cell lung cancer. Cancer Biology & Therapy. 8: 2042-50. PMID 19755855 DOI: 10.4161/Cbt.8.21.9764  0.805
2009 Dutt A, Salvesen HB, Greulich H, Sellers WR, Beroukhim R, Meyerson M. Somatic mutations are present in all members of the AKT family in endometrial carcinoma. British Journal of Cancer. 101: 1218-9; author reply. PMID 19738612 DOI: 10.1038/Sj.Bjc.6605301  0.726
2009 Wang Q, Li W, Zhang Y, Yuan X, Xu K, Yu J, Chen Z, Beroukhim R, Wang H, Lupien M, Wu T, Regan MM, Meyer CA, Carroll JS, Manrai AK, et al. Androgen receptor regulates a distinct transcription program in androgen-independent prostate cancer. Cell. 138: 245-56. PMID 19632176 DOI: 10.1016/J.Cell.2009.04.056  0.345
2009 McGillicuddy LT, Fromm JA, Hollstein PE, Kubek S, Beroukhim R, De Raedt T, Johnson BW, Williams SM, Nghiemphu P, Liau LM, Cloughesy TF, Mischel PS, Parret A, Seiler J, Moldenhauer G, et al. Proteasomal and genetic inactivation of the NF1 tumor suppressor in gliomagenesis. Cancer Cell. 16: 44-54. PMID 19573811 DOI: 10.1016/J.Ccr.2009.05.009  0.373
2009 Di Vizio D, Kim J, Hager MH, Morello M, Yang W, Lafargue CJ, True LD, Rubin MA, Adam RM, Beroukhim R, Demichelis F, Freeman MR. Oncosome formation in prostate cancer: association with a region of frequent chromosomal deletion in metastatic disease. Cancer Research. 69: 5601-9. PMID 19549916 DOI: 10.1158/0008-5472.Can-08-3860  0.409
2009 Viswanathan SR, Powers JT, Einhorn W, Hoshida Y, Ng TL, Toffanin S, O'Sullivan M, Lu J, Phillips LA, Lockhart VL, Shah SP, Tanwar PS, Mermel CH, Beroukhim R, Azam M, et al. Lin28 promotes transformation and is associated with advanced human malignancies. Nature Genetics. 41: 843-8. PMID 19483683 DOI: 10.1038/Ng.392  0.79
2009 Beroukhim R, Brunet JP, Di Napoli A, Mertz KD, Seeley A, Pires MM, Linhart D, Worrell RA, Moch H, Rubin MA, Sellers WR, Meyerson M, Linehan WM, Kaelin WG, Signoretti S. Patterns of gene expression and copy-number alterations in von-hippel lindau disease-associated and sporadic clear cell carcinoma of the kidney. Cancer Research. 69: 4674-81. PMID 19470766 DOI: 10.1158/0008-5472.Can-09-0146  0.726
2009 Sos ML, Michel K, Zander T, Weiss J, Frommolt P, Peifer M, Li D, Ullrich R, Koker M, Fischer F, Shimamura T, Rauh D, Mermel C, Fischer S, Stückrath I, ... ... Beroukhim R, et al. Predicting drug susceptibility of non-small cell lung cancers based on genetic lesions. The Journal of Clinical Investigation. 119: 1727-40. PMID 19451690 DOI: 10.1172/Jci37127  0.837
2009 Salvesen HB, Carter SL, Mannelqvist M, Dutt A, Getz G, Stefansson IM, Raeder MB, Sos ML, Engelsen IB, Trovik J, Wik E, Greulich H, Bø TH, Jonassen I, Thomas RK, ... ... Beroukhim R, et al. Integrated genomic profiling of endometrial carcinoma associates aggressive tumors with indicators of PI3 kinase activation. Proceedings of the National Academy of Sciences of the United States of America. 106: 4834-9. PMID 19261849 DOI: 10.1073/Pnas.0806514106  0.822
2009 Etemadmoghadam D, deFazio A, Beroukhim R, Mermel C, George J, Getz G, Tothill R, Okamoto A, Raeder MB, Harnett P, Lade S, Akslen LA, Tinker AV, Locandro B, Alsop K, et al. Integrated genome-wide DNA copy number and expression analysis identifies distinct mechanisms of primary chemoresistance in ovarian carcinomas. Clinical Cancer Research : An Official Journal of the American Association For Cancer Research. 15: 1417-27. PMID 19193619 DOI: 10.1158/1078-0432.Ccr-08-1564  0.751
2009 Demichelis F, Setlur SR, Beroukhim R, Perner S, Korbel JO, Lafargue CJ, Pflueger D, Pina C, Hofer MD, Sboner A, Svensson MA, Rickman DS, Urban A, Snyder M, Meyerson M, et al. Distinct genomic aberrations associated with ERG rearranged prostate cancer. Genes, Chromosomes & Cancer. 48: 366-80. PMID 19156837 DOI: 10.1002/Gcc.20647  0.644
2009 Du J, Bernasconi P, Clauser KR, Mani DR, Finn SP, Beroukhim R, Burns M, Julian B, Peng XP, Hieronymus H, Maglathlin RL, Lewis TA, Liau LM, Nghiemphu P, Mellinghoff IK, et al. Bead-based profiling of tyrosine kinase phosphorylation identifies SRC as a potential target for glioblastoma therapy. Nature Biotechnology. 27: 77-83. PMID 19098899 DOI: 10.1038/Nbt.1513  0.511
2008 Luo B, Cheung HW, Subramanian A, Sharifnia T, Okamoto M, Yang X, Hinkle G, Boehm JS, Beroukhim R, Weir BA, Mermel C, Barbie DA, Awad T, Zhou X, Nguyen T, et al. Highly parallel identification of essential genes in cancer cells. Proceedings of the National Academy of Sciences of the United States of America. 105: 20380-5. PMID 19091943 DOI: 10.1073/Pnas.0810485105  0.749
2008 Li C, Beroukhim R, Weir BA, Winckler W, Garraway LA, Sellers WR, Meyerson M. Major copy proportion analysis of tumor samples using SNP arrays. Bmc Bioinformatics. 9: 204. PMID 18426588 DOI: 10.1186/1471-2105-9-204  0.752
2008 Haverty PM, Fridlyand J, Li L, Getz G, Beroukhim R, Lohr S, Wu TD, Cavet G, Zhang Z, Chant J. High-resolution genomic and expression analyses of copy number alterations in breast tumors. Genes, Chromosomes & Cancer. 47: 530-42. PMID 18335499 DOI: 10.1002/Gcc.20558  0.456
2008 Demichelis F, Greulich H, Macoska JA, Beroukhim R, Sellers WR, Garraway L, Rubin MA. SNP panel identification assay (SPIA): a genetic-based assay for the identification of cell lines. Nucleic Acids Research. 36: 2446-56. PMID 18304946 DOI: 10.1093/Nar/Gkn089  0.655
2008 Lin WM, Baker AC, Beroukhim R, Winckler W, Feng W, Marmion JM, Laine E, Greulich H, Tseng H, Gates C, Hodi FS, Dranoff G, Sellers WR, Thomas RK, Meyerson M, et al. Modeling genomic diversity and tumor dependency in malignant melanoma. Cancer Research. 68: 664-73. PMID 18245465 DOI: 10.1158/0008-5472.Can-07-2615  0.816
2008 Engelsen IB, Stefansson IM, Beroukhim R, Sellers WR, Meyerson M, Akslen LA, Salvesen HB. HER-2/neu expression is associated with high tumor cell proliferation and aggressive phenotype in a population based patient series of endometrial carcinomas. International Journal of Oncology. 32: 307-16. PMID 18202752 DOI: 10.3892/Ijo.32.2.307  0.719
2008 Takeyama K, Monti S, Manis JP, Dal Cin P, Getz G, Beroukhim R, Dutt S, Aster JC, Alt FW, Golub TR, Shipp MA. Integrative analysis reveals 53BP1 copy loss and decreased expression in a subset of human diffuse large B-cell lymphomas. Oncogene. 27: 318-22. PMID 17637749 DOI: 10.1038/Sj.Onc.1210650  0.557
2007 Beroukhim R, Getz G, Nghiemphu L, Barretina J, Hsueh T, Linhart D, Vivanco I, Lee JC, Huang JH, Alexander S, Du J, Kau T, Thomas RK, Shah K, Soto H, et al. Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proceedings of the National Academy of Sciences of the United States of America. 104: 20007-12. PMID 18077431 DOI: 10.1073/Pnas.0710052104  0.82
2007 Weir BA, Woo MS, Getz G, Perner S, Ding L, Beroukhim R, Lin WM, Province MA, Kraja A, Johnson LA, Shah K, Sato M, Thomas RK, Barletta JA, Borecki IB, et al. Characterizing the cancer genome in lung adenocarcinoma. Nature. 450: 893-8. PMID 17982442 DOI: 10.1038/Nature06358  0.791
2007 Mertz KD, Setlur SR, Dhanasekaran SM, Demichelis F, Perner S, Tomlins S, Tchinda J, Laxman B, Vessella RL, Beroukhim R, Lee C, Chinnaiyan AM, Rubin MA. Molecular characterization of TMPRSS2-ERG gene fusion in the NCI-H660 prostate cancer cell line: a new perspective for an old model. Neoplasia (New York, N.Y.). 9: 200-6. PMID 17401460 DOI: 10.1593/Neo.07103  0.357
2007 Shipitsin M, Campbell LL, Argani P, Weremowicz S, Bloushtain-Qimron N, Yao J, Nikolskaya T, Serebryiskaya T, Beroukhim R, Hu M, Halushka MK, Sukumar S, Parker LM, Anderson KS, Harris LN, et al. Molecular definition of breast tumor heterogeneity. Cancer Cell. 11: 259-73. PMID 17349583 DOI: 10.1016/J.Ccr.2007.01.013  0.361
2007 Thomas RK, Baker AC, Debiasi RM, Winckler W, Laframboise T, Lin WM, Wang M, Feng W, Zander T, MacConaill L, Macconnaill LE, Lee JC, Nicoletti R, Hatton C, Goyette M, ... ... Beroukhim R, et al. High-throughput oncogene mutation profiling in human cancer. Nature Genetics. 39: 347-51. PMID 17293865 DOI: 10.1038/Ng1975  0.825
2007 Dutt A, Beroukhim R. Single nucleotide polymorphism array analysis of cancer. Current Opinion in Oncology. 19: 43-9. PMID 17133111 DOI: 10.1097/Cco.0B013E328011A8C1  0.583
2007 Beroukhim R, Lin M, Park Y, Hao K, Zhao X, Garraway LA, Fox EA, Hochberg EP, Mellinghoff IK, Hofer MD, Descazeaud A, Rubin MA, Meyerson M, Wong WH, Sellers WR, et al. Correction: Inferring Loss-of-Heterozygosity from Unpaired Tumors Using High-Density Oligonucleotide SNP Arrays Plos Computational Biology. 3: e40. DOI: 10.1371/Journal.Pcbi.0030040  0.728
2007 Thomas RK, Baker AC, DeBiasi RM, Winckler W, LaFramboise T, Lin WM, Wang M, Feng W, Zander T, MacConnaill LE, Lee JC, Nicoletti R, Hatton C, Goyette M, Girard L, ... ... Beroukhim R, et al. Erratum: Corrigendum: High-throughput oncogene mutation profiling in human cancer Nature Genetics. 39: 567-567. DOI: 10.1038/Ng0407-567A  0.789
2006 Lee JC, Vivanco I, Beroukhim R, Huang JH, Feng WL, DeBiasi RM, Yoshimoto K, King JC, Nghiemphu P, Yuza Y, Xu Q, Greulich H, Thomas RK, Paez JG, Peck TC, et al. Epidermal growth factor receptor activation in glioblastoma through novel missense mutations in the extracellular domain. Plos Medicine. 3: e485. PMID 17177598 DOI: 10.1371/Journal.Pmed.0030485  0.689
2006 Perner S, Demichelis F, Beroukhim R, Schmidt FH, Mosquera JM, Setlur S, Tchinda J, Tomlins SA, Hofer MD, Pienta KG, Kuefer R, Vessella R, Sun XW, Meyerson M, Lee C, et al. TMPRSS2:ERG fusion-associated deletions provide insight into the heterogeneity of prostate cancer. Cancer Research. 66: 8337-41. PMID 16951139 DOI: 10.1158/0008-5472.Can-06-1482  0.711
2006 Beroukhim R, Lin M, Park Y, Hao K, Zhao X, Garraway LA, Fox EA, Hochberg EP, Mellinghoff IK, Hofer MD, Descazeaud A, Rubin MA, Meyerson M, Wong WH, Sellers WR, et al. Inferring loss-of-heterozygosity from unpaired tumors using high-density oligonucleotide SNP arrays. Plos Computational Biology. 2: e41. PMID 16699594 DOI: 10.1371/Journal.Pcbi.0020041  0.751
2005 Garraway LA, Weir BA, Zhao X, Widlund H, Beroukhim R, Berger A, Rimm D, Rubin MA, Fisher DE, Meyerson ML, Sellers WR. "Lineage addiction" in human cancer: lessons from integrated genomics. Cold Spring Harbor Symposia On Quantitative Biology. 70: 25-34. PMID 16869735 DOI: 10.1101/Sqb.2005.70.016  0.791
2005 Weir B, LaFramboise T, Lin M, Beroukhim R, Garraway L, Beheshti J, Lee J, Janne P, Li C, Sellers W, Naoki K, Richards W, Sugarbaker D, Chen F, Rubin M, et al. High resolution SNP arrays identify amplified regions in lung cancer Cancer Biology and Therapy. 4. PMID 16710933 DOI: 10.4161/cbt.4.8.2003  0.598
2005 LaFramboise T, Weir BA, Zhao X, Beroukhim R, Li C, Harrington D, Sellers WR, Meyerson M. Allele-specific amplification in cancer revealed by SNP array analysis. Plos Computational Biology. 1: e65. PMID 16322765 DOI: 10.1371/Journal.Pcbi.0010065  0.715
2005 Mellinghoff IK, Wang MY, Vivanco I, Haas-Kogan DA, Zhu S, Dia EQ, Lu KV, Yoshimoto K, Huang JH, Chute DJ, Riggs BL, Horvath S, Liau LM, Cavenee WK, Rao PN, ... Beroukhim R, et al. Molecular determinants of the response of glioblastomas to EGFR kinase inhibitors. The New England Journal of Medicine. 353: 2012-24. PMID 16282176 DOI: 10.1056/Nejmoa051918  0.559
2005 Koochekpour S, Zhuang YJ, Beroukhim R, Hsieh CL, Hofer MD, Zhau HE, Hiraiwa M, Pattan DY, Ware JL, Luftig RB, Sandhoff K, Sawyers CL, Pienta KJ, Rubin MA, Vessella RL, et al. Amplification and overexpression of prosaposin in prostate cancer. Genes, Chromosomes & Cancer. 44: 351-64. PMID 16080200 DOI: 10.1002/Gcc.20249  0.56
2005 Garraway LA, Widlund HR, Rubin MA, Getz G, Berger AJ, Ramaswamy S, Beroukhim R, Milner DA, Granter SR, Du J, Lee C, Wagner SN, Li C, Golub TR, Rimm DL, et al. Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma. Nature. 436: 117-22. PMID 16001072 DOI: 10.1038/Nature03664  0.822
2005 Zhao X, Weir BA, LaFramboise T, Lin M, Beroukhim R, Garraway L, Beheshti J, Lee JC, Naoki K, Richards WG, Sugarbaker D, Chen F, Rubin MA, Jänne PA, Girard L, et al. Homozygous deletions and chromosome amplifications in human lung carcinomas revealed by single nucleotide polymorphism array analysis. Cancer Research. 65: 5561-70. PMID 15994928 DOI: 10.1158/0008-5472.Can-04-4603  0.737
2005 Beroukhim R, Lin M, Park Y, Hao K, Zhao X, Garraway LA, Fox EA, Hochberg EP, Mellinghoff IK, Hofer MD, Descazeaud A, Rubin MA, Meyerson ML, Wong W, Sellers WR, et al. Inferring Loss-of-Heterozygosity from Tumors Without Paired Normals Using High-Density SNP Arrays Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.0020041.Eor  0.632
2004 Allinen M, Beroukhim R, Cai L, Brennan C, Lahti-Domenici J, Huang H, Porter D, Hu M, Chin L, Richardson A, Schnitt S, Sellers WR, Polyak K. Molecular characterization of the tumor microenvironment in breast cancer. Cancer Cell. 6: 17-32. PMID 15261139 DOI: 10.1016/J.Ccr.2004.06.010  0.585
2004 Rubin MA, Varambally S, Beroukhim R, Tomlins SA, Rhodes DR, Paris PL, Hofer MD, Storz-Schweizer M, Kuefer R, Fletcher JA, Hsi BL, Byrne JA, Pienta KJ, Collins C, Sellers WR, et al. Overexpression, amplification, and androgen regulation of TPD52 in prostate cancer. Cancer Research. 64: 3814-22. PMID 15172988 DOI: 10.1158/0008-5472.Can-03-3881  0.578
2004 Paez JG, Lin M, Beroukhim R, Lee JC, Zhao X, Richter DJ, Gabriel S, Herman P, Sasaki H, Altshuler D, Li C, Meyerson M, Sellers WR. Genome coverage and sequence fidelity of phi29 polymerase-based multiple strand displacement whole genome amplification. Nucleic Acids Research. 32: e71. PMID 15150323 DOI: 10.1093/Nar/Gnh069  0.723
1997 Beroukhim R, Unwin N. Distortion correction of tubular crystals: improvements in the acetylcholine receptor structure. Ultramicroscopy. 70: 57-81. PMID 9440347 DOI: 10.1016/S0304-3991(97)00070-3  0.399
1995 Beroukhim R, Unwin N. Three-dimensional location of the main immunogenic region of the acetylcholine receptor. Neuron. 15: 323-31. PMID 7544140 DOI: 10.1016/0896-6273(95)90037-3  0.385
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