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Year Number of Results
2002 3
2008 1
2011 2
2012 1
2013 2
2014 5
2015 2
2016 6
2017 9
2018 9
2019 10
2020 31
2021 5
2022 24
2023 23

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Page 1
Indoximod-based chemo-immunotherapy for pediatric brain tumors: a first-in-children phase 1 trial.
Johnson TS, MacDonald TJ, Pacholczyk R, Aguilera D, Al-Basheer A, Bajaj M, Bandopadhayay P, Berrong Z, Bouffet E, Castellino RC, Dorris K, Eaton BR, Esiashvili N, Fangusaro JR, Foreman N, Fridlyand D, Giller C, Heger IM, Huang C, Kadom N, Kennedy EP, Manoharan N, Martin W, McDonough C, Parker RS, Ramaswamy V, Ring E, Rojiani A, Sadek RF, Satpathy S, Schniederjan M, Smith A, Smith C, Thomas BE, Vaizer R, Yeo KK, Bhasin MK, Munn DH. Johnson TS, et al. Among authors: bandopadhayay p. Neuro Oncol. 2023 Sep 16:noad174. doi: 10.1093/neuonc/noad174. Online ahead of print. Neuro Oncol. 2023. PMID: 37715730
Noninvasive molecular subtyping of pediatric low-grade glioma with self-supervised transfer learning.
Tak D, Ye Z, Zapaishchykova A, Boyd A, Vajapeyam S, Zha Y, Prabhu S, Liu KX, Nabavizadeh A, Familiar A, Hayat H, Resnick AC, Mueller S, Aerts H, Bandopadhayay P, Ligon KL, Haas-Kogan D, Poussaint TY, Kann BH. Tak D, et al. Among authors: bandopadhayay p. medRxiv. 2023 Aug 24:2023.08.04.23293673. doi: 10.1101/2023.08.04.23293673. Preprint. medRxiv. 2023. PMID: 37609311 Free PMC article.
Genome-wide pooled CRISPR screening in neurospheres.
Abid T, Goodale AB, Kalani Z, Wyatt M, Gonzalez EM, Zhou KN, Qian K, Novikov D, Condurat AL, Bandopadhayay P, Piccioni F, Persky NS, Root DE. Abid T, et al. Among authors: bandopadhayay p. Nat Protoc. 2023 Jul;18(7):2014-2031. doi: 10.1038/s41596-023-00835-6. Epub 2023 Jun 7. Nat Protoc. 2023. PMID: 37286821 Review.
Translation of non-canonical open reading frames as a cancer cell survival mechanism in childhood medulloblastoma.
Hofman DA, Ruiz-Orera J, Yannuzzi I, Murugesan R, Brown A, Clauser KR, Condurat AL, van Dinter JT, Engels SAG, Goodale A, van der Lugt J, Abid T, Wang L, Zhou KN, Vogelzang J, Ligon KL, Phoenix TN, Roth JA, Root DE, Hubner N, Golub TR, Bandopadhayay P, van Heesch S, Prensner JR. Hofman DA, et al. Among authors: bandopadhayay p. bioRxiv. 2023 May 6:2023.05.04.539399. doi: 10.1101/2023.05.04.539399. Preprint. bioRxiv. 2023. PMID: 37205492 Free PMC article.
Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition.
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, Dentro SC, Blanco MG, Contino G, Ardeljan D, Tojo M, Roberts ND, Zumalave S, Edwards PA, Weischenfeldt J, Puiggròs M, Chong Z, Chen K, Lee EA, Wala JA, Raine KM, Butler A, Waszak SM, Navarro FCP, Schumacher SE, Monlong J, Maura F, Bolli N, Bourque G, Gerstein M, Park PJ, Wedge DC, Beroukhim R, Torrents D, Korbel JO, Martincorena I, Fitzgerald RC, Van Loo P, Kazazian HH, Burns KH; PCAWG Structural Variation Working Group; Campbell PJ, Tubio JMC; PCAWG Consortium. Rodriguez-Martin B, et al. Nat Genet. 2023 Jun;55(6):1080. doi: 10.1038/s41588-023-01319-9. Nat Genet. 2023. PMID: 36944736 Free PMC article. No abstract available.
Author Correction: The landscape of viral associations in human cancers.
Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H; PCAWG Pathogens; Cooper CS, Eils R, Ferretti V, Lichter P; PCAWG Consortium. Zapatka M, et al. Nat Genet. 2023 Jun;55(6):1077. doi: 10.1038/s41588-023-01316-y. Nat Genet. 2023. PMID: 36944734 Free PMC article. No abstract available.
Accurate diagnosis of pediatric brain cancers.
Bandopadhayay P, Mardis ER. Bandopadhayay P, et al. Nat Med. 2023 Apr;29(4):787-788. doi: 10.1038/s41591-023-02254-2. Nat Med. 2023. PMID: 36932243 No abstract available.
ALK Amplification and Rearrangements Are Recurrent Targetable Events in Congenital and Adult Glioblastoma.
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, Becker S, Watkinson F, Sinai C, Cohen EF, Booker MA, Tolstorukov MY, Haemels V, Goumnerova L, Wright K, Kieran M, Fehnel K, Reardon D, Tauziede-Espariat A, Lulla R, Carcamo B, Chaleff S, Charest A, De Smet F, Ligon AH, Dubuc A, Pages M, Varlet P, Wen PY, Alexander BM, Chi S, Alexandrescu S, Kittler R, Bachoo R, Bandopadhayay P, Beroukhim R, Ligon KL. Blandin AF, et al. Among authors: bandopadhayay p. Clin Cancer Res. 2023 Jul 14;29(14):2651-2667. doi: 10.1158/1078-0432.CCR-21-3521. Clin Cancer Res. 2023. PMID: 36780194
Author Correction: The repertoire of mutational signatures in human cancer.
Alexandrov LB, Kim J, Haradhvala NJ, Huang MN, Tian Ng AW, Wu Y, Boot A, Covington KR, Gordenin DA, Bergstrom EN, Islam SMA, Lopez-Bigas N, Klimczak LJ, McPherson JR, Morganella S, Sabarinathan R, Wheeler DA, Mustonen V; PCAWG Mutational Signatures Working Group; Getz G, Rozen SG, Stratton MR; PCAWG Consortium. Alexandrov LB, et al. Nature. 2023 Feb;614(7948):E41. doi: 10.1038/s41586-022-05600-5. Nature. 2023. PMID: 36697836 Free PMC article. No abstract available.
Author Correction: Patterns of somatic structural variation in human cancer genomes.
Li Y, Roberts ND, Wala JA, Shapira O, Schumacher SE, Kumar K, Khurana E, Waszak S, Korbel JO, Haber JE, Imielinski M; PCAWG Structural Variation Working Group; Weischenfeldt J, Beroukhim R, Campbell PJ; PCAWG Consortium. Li Y, et al. Nature. 2023 Feb;614(7948):E38. doi: 10.1038/s41586-022-05597-x. Nature. 2023. PMID: 36697835 Free PMC article. No abstract available.
Author Correction: Pan-cancer analysis of whole genomes.
ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Nature. 2023 Feb;614(7948):E39. doi: 10.1038/s41586-022-05598-w. Nature. 2023. PMID: 36697834 Free PMC article. No abstract available.
Author Correction: The evolutionary history of 2,658 cancers.
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, Haase K, Jerman L, Sengupta S, Macintyre G, Malikic S, Donmez N, Livitz DG, Cmero M, Demeulemeester J, Schumacher S, Fan Y, Yao X, Lee J, Schlesner M, Boutros PC, Bowtell DD, Zhu H, Getz G, Imielinski M, Beroukhim R, Sahinalp SC, Ji Y, Peifer M, Markowetz F, Mustonen V, Yuan K, Wang W, Morris QD; PCAWG Evolution & Heterogeneity Working Group; Spellman PT, Wedge DC, Van Loo P; PCAWG Consortium. Gerstung M, et al. Nature. 2023 Feb;614(7948):E42. doi: 10.1038/s41586-022-05601-4. Nature. 2023. PMID: 36697833 Free PMC article. No abstract available.
Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
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, Shuai S, Lanzós A, Herrmann C, Maruvka YE, Shen C, Amin SB, Bandopadhayay P, Bertl J, Boroevich KA, Busanovich J, Carlevaro-Fita J, Chakravarty D, Chan CWY, Craft D, Dhingra P, Diamanti K, Fonseca NA, Gonzalez-Perez A, Guo Q, Hamilton MP, Haradhvala NJ, Hong C, Isaev K, Johnson TA, Juul M, Kahles A, Kahraman A, Kim Y, Komorowski J, Kumar K, Kumar S, Lee D, Lehmann KV, Li Y, Liu EM, Lochovsky L, Park K, Pich O, Roberts ND, Saksena G, Schumacher SE, Sidiropoulos N, Sieverling L, Sinnott-Armstrong N, Stewart C, Tamborero D, Tubio JMC, Umer HM, Uusküla-Reimand L, Wadelius C, Wadi L, Yao X, Zhang CZ, Zhang J, Haber JE, Hobolth A, Imielinski M, Kellis M, Lawrence MS, von Mering C, Nakagawa H, Raphael BJ, Rubin MA, Sander C, Stein LD, Stuart JM, Tsunoda T, Wheeler DA, Johnson R, Reimand J, Gerstein M, Khurana E, Campbell PJ, López-Bigas N; PCAWG Drivers and Functional Interpretation Working Group; PCAWG Structural Variation Working Group; Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G; PCAWG Consortium. Rheinbay E, et al. Among authors: bandopadhayay p. Nature. 2023 Feb;614(7948):E40. doi: 10.1038/s41586-022-05599-9. Nature. 2023. PMID: 36697832 Free PMC article. No abstract available.
Author Correction: Genomic basis for RNA alterations in cancer.
PCAWG Transcriptome Core Group; Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley KA, Hou Y, Huska MR, Kilpinen H, Korbel JO, Marin MG, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu CS, Siebert R, Stark SG, Su H, Tan P, Waszak SM, Yung C, Zhu S, Awadalla P, Creighton CJ, Meyerson M, Ouellette BFF, Wu K, Yang H; PCAWG Transcriptome Working Group; Brazma A, Brooks AN, Göke J, Rätsch G, Schwarz RF, Stegle O, Zhang Z; PCAWG Consortium. PCAWG Transcriptome Core Group, et al. Nature. 2023 Feb;614(7948):E37. doi: 10.1038/s41586-022-05596-y. Nature. 2023. PMID: 36697831 Free PMC article. No abstract available.
Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer.
Sieverling L, Hong C, Koser SD, Ginsbach P, Kleinheinz K, Hutter B, Braun DM, Cortés-Ciriano I, Xi R, Kabbe R, Park PJ, Eils R, Schlesner M; PCAWG-Structural Variation Working Group; Brors B, Rippe K, Jones DTW, Feuerbach L; PCAWG Consortium. Sieverling L, et al. Nat Commun. 2022 Dec 8;13(1):7574. doi: 10.1038/s41467-022-32328-7. Nat Commun. 2022. PMID: 36481818 Free PMC article. No abstract available.
Author Correction: Inferring structural variant cancer cell fraction.
Cmero M, Yuan K, Ong CS, Schröder J; PCAWG Evolution and Heterogeneity Working Group; Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G; PCAWG Consortium. Cmero M, et al. Nat Commun. 2022 Dec 8;13(1):7568. doi: 10.1038/s41467-022-32338-5. Nat Commun. 2022. PMID: 36481724 Free PMC article. No abstract available.
Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns.
Jiao W, Atwal G, Polak P, Karlic R, Cuppen E; PCAWG Tumor Subtypes and Clinical Translation Working Group; Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD; PCAWG Consortium. Jiao W, et al. Nat Commun. 2022 Dec 8;13(1):7573. doi: 10.1038/s41467-022-32329-6. Nat Commun. 2022. PMID: 36481665 Free PMC article. No abstract available.
Author Correction: Integrative pathway enrichment analysis of multivariate omics data.
Paczkowska M, Barenboim J, Sintupisut N, Fox NS, Zhu H, Abd-Rabbo D, Mee MW, Boutros PC; PCAWG Drivers and Functional Interpretation Working Group; Reimand J; PCAWG Consortium. Paczkowska M, et al. Nat Commun. 2022 Dec 8;13(1):7570. doi: 10.1038/s41467-022-32342-9. Nat Commun. 2022. PMID: 36481658 Free PMC article. No abstract available.
Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations.
Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A; PCAWG Transcriptome Working Group; PCAWG Structural Variation Working Group; Creighton CJ; PCAWG Consortium. Zhang Y, et al. Nat Commun. 2022 Dec 8;13(1):7572. doi: 10.1038/s41467-022-32333-w. Nat Commun. 2022. PMID: 36481652 Free PMC article. No abstract available.
Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes.
Reyna MA, Haan D, Paczkowska M, Verbeke LPC, Vazquez M, Kahraman A, Pulido-Tamayo S, Barenboim J, Wadi L, Dhingra P, Shrestha R, Getz G, Lawrence MS, Pedersen JS, Rubin MA, Wheeler DA, Brunak S, Izarzugaza JMG, Khurana E, Marchal K, von Mering C, Sahinalp SC, Valencia A; PCAWG Drivers and Functional Interpretation Working Group; Reimand J, Stuart JM, Raphael BJ; PCAWG Consortium. Reyna MA, et al. Nat Commun. 2022 Dec 8;13(1):7566. doi: 10.1038/s41467-022-32334-9. Nat Commun. 2022. PMID: 36481610 Free PMC article. No abstract available.
K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas.
Jessa S, Mohammadnia A, Harutyunyan AS, Hulswit M, Varadharajan S, Lakkis H, Kabir N, Bashardanesh Z, Hébert S, Faury D, Vladoiu MC, Worme S, Coutelier M, Krug B, Faria Andrade A, Pathania M, Bajic A, Weil AG, Ellezam B, Atkinson J, Dudley RWR, Farmer JP, Perreault S, Garcia BA, Larouche V, Blanchette M, Garzia L, Bhaduri A, Ligon KL, Bandopadhayay P, Taylor MD, Mack SC, Jabado N, Kleinman CL. Jessa S, et al. Among authors: bandopadhayay p. Nat Genet. 2022 Dec;54(12):1865-1880. doi: 10.1038/s41588-022-01205-w. Epub 2022 Dec 5. Nat Genet. 2022. PMID: 36471070 Free PMC article.
Paediatric Strategy Forum for medicinal product development in mitogen-activated protein kinase pathway inhibitors: ACCELERATE in collaboration with the European Medicines Agency with participation of the Food and Drug Administration.
Pearson AD, Allen C, Fangusaro J, Hutter C, Witt O, Weiner S, Reaman G, Russo M, Bandopadhayay P, Ahsan S, Barone A, Barry E, de Rojas T, Fisher M, Fox E, Bender JG, Gore L, Hargrave D, Hawkins D, Kreider B, Langseth AJ, Lesa G, Ligas F, Marotti M, Marshall LV, Nasri K, Norga K, Nysom K, Pappo A, Rossato G, Scobie N, Smith M, Stieglitz E, Weigel B, Weinstein A, Viana R, Karres D, Vassal G. Pearson AD, et al. Among authors: bandopadhayay p. Eur J Cancer. 2022 Dec;177:120-142. doi: 10.1016/j.ejca.2022.09.036. Epub 2022 Oct 14. Eur J Cancer. 2022. PMID: 36335782 Free article. Review.
BH3 mimetics targeting BCL-XL impact the senescent compartment of pilocytic astrocytoma.
Selt F, Sigaud R, Valinciute G, Sievers P, Zaman J, Alcon C, Schmid S, Peterziel H, Tsai JW, Guiho R, Martínez-Barbera JP, Pusch S, Deng J, Zhai Y, van Tilburg CM, Schuhman MU, El Damaty A, Bandopadhayay P, Herold-Mende C, von Deimling A, Pfister SM, Montero J, Capper D, Oehme I, Sahm F, Jones DTW, Witt O, Milde T. Selt F, et al. Among authors: bandopadhayay p. Neuro Oncol. 2023 Apr 6;25(4):735-747. doi: 10.1093/neuonc/noac199. Neuro Oncol. 2023. PMID: 35977048 Free PMC article.
Single cell spatial analysis reveals the topology of immunomodulatory purinergic signaling in glioblastoma.
Coy S, Wang S, Stopka SA, Lin JR, Yapp C, Ritch CC, Salhi L, Baker GJ, Rashid R, Baquer G, Regan M, Khadka P, Cole KA, Hwang J, Wen PY, Bandopadhayay P, Santi M, De Raedt T, Ligon KL, Agar NYR, Sorger PK, Touat M, Santagata S. Coy S, et al. Among authors: bandopadhayay p. Nat Commun. 2022 Aug 16;13(1):4814. doi: 10.1038/s41467-022-32430-w. Nat Commun. 2022. PMID: 35973991 Free PMC article.
FOXR2 Is an Epigenetically Regulated Pan-Cancer Oncogene That Activates ETS Transcriptional Circuits.
Tsai JW, Cejas P, Wang DK, Patel S, Wu DW, Arounleut P, Wei X, Zhou N, Syamala S, Dubois FPB, Crane A, Pelton K, Vogelzang J, Sousa C, Baguette A, Chen X, Condurat AL, Dixon-Clarke SE, Zhou KN, Lu SD, Gonzalez EM, Chacon MS, Digiacomo JJ, Kumbhani R, Novikov D, Hunter J, Tsoli M, Ziegler DS, Dirksen U, Jager N, Balasubramanian GP, Kramm CM, Nathrath M, Bielack S, Baker SJ, Zhang J, McFarland JM, Getz G, Aguet F, Jabado N, Witt O, Pfister SM, Ligon KL, Hovestadt V, Kleinman CL, Long H, Jones DTW, Bandopadhayay P, Phoenix TN. Tsai JW, et al. Among authors: bandopadhayay p. Cancer Res. 2022 Sep 2;82(17):2980-3001. doi: 10.1158/0008-5472.CAN-22-0671. Cancer Res. 2022. PMID: 35802025 Free PMC article.
Structural variants shape driver combinations and outcomes in pediatric high-grade glioma.
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, Sinai C, Wang DK, Khadka P, Lewis K, Nguyen L, Malkin H, Ho P, O'Rourke R, Zhang S, Gold R, Deng D, Serrano J, Snuderl M, Jones C, Wright KD, Chi SN, Grill J, Kleinman CL, Goumnerova LC, Jabado N, Jones DTW, Kieran MW, Ligon KL, Beroukhim R, Bandopadhayay P. Dubois FPB, et al. Among authors: bandopadhayay p. Nat Cancer. 2022 Aug;3(8):994-1011. doi: 10.1038/s43018-022-00403-z. Epub 2022 Jul 4. Nat Cancer. 2022. PMID: 35788723 Free PMC article.
Pediatric pineoblastoma: A pooled outcome study of North American and Australian therapeutic data.
Hansford JR, Huang J, Endersby R, Dodgshun AJ, Li BK, Hwang E, Leary S, Gajjar A, Von Hoff K, Wells O, Wray A, Kotecha RS, Raleigh DR, Stoller S, Mueller S, Schild SE, Bandopadhayay P, Fouladi M, Bouffet E, Huang A, Onar-Thomas A, Gottardo NG. Hansford JR, et al. Among authors: bandopadhayay p. Neurooncol Adv. 2022 Apr 14;4(1):vdac056. doi: 10.1093/noajnl/vdac056. eCollection 2022 Jan-Dec. Neurooncol Adv. 2022. PMID: 35664557 Free PMC article.
PPM1D mutations are oncogenic drivers of de novo diffuse midline glioma formation.
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, Georgis Y, Jarmale S, Melanson R, Bonanno K, Schoolcraft K, Miller PG, Condurat AL, Gonzalez EM, Qian K, Morin E, Langhnoja J, Lupien LE, Rendo V, Digiacomo J, Wang D, Zhou K, Kumbhani R, Guerra Garcia ME, Sinai CE, Becker S, Schneider R, Vogelzang J, Krug K, Goodale A, Abid T, Kalani Z, Piccioni F, Beroukhim R, Persky NS, Root DE, Carcaboso AM, Ebert BL, Fuller C, Babur O, Kieran MW, Jones C, Keshishian H, Ligon KL, Carr SA, Phoenix TN, Bandopadhayay P. Khadka P, et al. Among authors: bandopadhayay p. Nat Commun. 2022 Feb 1;13(1):604. doi: 10.1038/s41467-022-28198-8. Nat Commun. 2022. PMID: 35105861 Free PMC article.
Liquid biopsy detection of genomic alterations in pediatric brain tumors from cell-free DNA in peripheral blood, CSF, and urine.
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, Love JC, Ligon KL, Wright KD, Adalsteinsson VA, Beroukhim R, Bandopadhayay P. Pagès M, et al. Among authors: bandopadhayay p. Neuro Oncol. 2022 Aug 1;24(8):1352-1363. doi: 10.1093/neuonc/noab299. Neuro Oncol. 2022. PMID: 34984433 Free PMC article.
Accuracy of central neuro-imaging review of DIPG compared with histopathology in the International DIPG Registry.
Lazow MA, Fuller C, DeWire M, Lane A, Bandopadhayay P, Bartels U, Bouffet E, Cheng S, Cohen KJ, Cooney TM, Coven SL, Dholaria H, Diez B, Dorris K, El-Ayadi M, El-Sheikh A, Fisher PG, Fonseca A, Garcia Lombardi M, Greiner RJ, Goldman S, Gottardo N, Gururangan S, Hansford JR, Hassall T, Hawkins C, Kilburn L, Koschmann C, Leary SE, Ma J, Minturn JE, Monje-Deisseroth M, Packer R, Samson Y, Sandler ES, Sevlever G, Tinkle CL, Tsui K, Wagner LM, Zaghloul M, Ziegler DS, Chaney B, Black K, Asher A, Drissi R, Fouladi M, Jones BV, Leach JL. Lazow MA, et al. Among authors: bandopadhayay p. Neuro Oncol. 2022 May 4;24(5):821-833. doi: 10.1093/neuonc/noab245. Neuro Oncol. 2022. PMID: 34668975 Free PMC article.
Molecular Alterations in Pediatric Low-Grade Gliomas That Led to Death.
Ahrendsen JT, Sinai C, Meredith DM, Malinowski SW, Cooney TM, Bandopadhayay P, Ligon KL, Alexandrescu S. Ahrendsen JT, et al. Among authors: bandopadhayay p. J Neuropathol Exp Neurol. 2021 Nov 19;80(11):1052–1059. doi: 10.1093/jnen/nlab097. Epub 2021 Sep 27. J Neuropathol Exp Neurol. 2021. PMID: 34580728
Characteristics of patients ≥10 years of age with diffuse intrinsic pontine glioma: a report from the International DIPG/DMG Registry.
Erker C, Lane A, Chaney B, Leary S, Minturn JE, Bartels U, Packer RJ, Dorris K, Gottardo NG, Warren KE, Broniscer A, Kieran MW, Zhu X, White P, Dexheimer PJ, Black K, Asher A, DeWire M, Hansford JR, Gururangan S, Nazarian J, Ziegler DS, Sandler E, Bartlett A, Goldman S, Shih CS, Hassall T, Dholaria H, Bandopadhayay P, Samson Y, Monje M, Fisher PG, Dodgshun A, Parkin S, Chintagumpala M, Tsui K, Gass D, Larouche V, Broxson E, Garcia Lombardi M, Wang SS, Ma J, Hawkins C, Hamideh D, Wagner L, Koschmann C, Fuller C, Drissi R, Jones BV, Leach J, Fouladi M. Erker C, et al. Among authors: bandopadhayay p. Neuro Oncol. 2022 Jan 5;24(1):141-152. doi: 10.1093/neuonc/noab140. Neuro Oncol. 2022. PMID: 34114629 Free PMC article.
A first-generation pediatric cancer dependency map.
Dharia NV, Kugener G, Guenther LM, Malone CF, Durbin AD, Hong AL, Howard TP, Bandopadhayay P, Wechsler CS, Fung I, Warren AC, Dempster JM, Krill-Burger JM, Paolella BR, Moh P, Jha N, Tang A, Montgomery P, Boehm JS, Hahn WC, Roberts CWM, McFarland JM, Tsherniak A, Golub TR, Vazquez F, Stegmaier K. Dharia NV, et al. Among authors: bandopadhayay p. Nat Genet. 2021 Apr;53(4):529-538. doi: 10.1038/s41588-021-00819-w. Epub 2021 Mar 22. Nat Genet. 2021. PMID: 33753930 Free PMC article.
Bromodomain and extra-terminal inhibitors-A consensus prioritisation after the Paediatric Strategy Forum for medicinal product development of epigenetic modifiers in children-ACCELERATE.
Pearson AD, DuBois SG, Buenger V, Kieran M, Stegmaier K, Bandopadhayay P, Bennett K, Bourdeaut F, Brown PA, Chesler L, Clymer J, Fox E, French CA, Germovsek E, Giles FJ, Bender JG, Hattersley MM, Ludwinski D, Luptakova K, Maris J, McDonough J, Nikolova Z, Smith M, Tsiatis AC, Vibhakar R, Weiner S, Yi JS, Zheng F, Vassal G. Pearson AD, et al. Among authors: bandopadhayay p. Eur J Cancer. 2021 Mar;146:115-124. doi: 10.1016/j.ejca.2021.01.018. Epub 2021 Feb 16. Eur J Cancer. 2021. PMID: 33601323 Free article. Review.
Outcomes after first relapse of childhood intracranial ependymoma.
Tsai JW, Manoharan N, Alexandrescu S, Zimmerman MA, Scully J, Chordas C, Clymer J, Wright KD, Filbin M, Ullrich NJ, Marcus KJ, Haas-Kogan D, Chi SN, Bandopadhayay P, Yeo KK. Tsai JW, et al. Among authors: bandopadhayay p. Pediatr Blood Cancer. 2021 Aug;68(8):e28930. doi: 10.1002/pbc.28930. Epub 2021 Feb 9. Pediatr Blood Cancer. 2021. PMID: 33565268
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The "Risk" in Pediatric Low-Grade Glioma.
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The evolutionary history of 2,658 cancers.
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Patterns of somatic structural variation in human cancer genomes.
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The landscape of viral associations in human cancers.
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Comprehensive molecular characterization of mitochondrial genomes in human cancers.
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Butler enables rapid cloud-based analysis of thousands of human genomes.
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Pathway and network analysis of more than 2500 whole cancer genomes.
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A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns.
Jiao W, Atwal G, Polak P, Karlic R, Cuppen E; PCAWG Tumor Subtypes and Clinical Translation Working Group; Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD; PCAWG Consortium. Jiao W, et al. Nat Commun. 2020 Feb 5;11(1):728. doi: 10.1038/s41467-019-13825-8. Nat Commun. 2020. PMID: 32024849 Free PMC article.
Integrative pathway enrichment analysis of multivariate omics data.
Paczkowska M, Barenboim J, Sintupisut N, Fox NS, Zhu H, Abd-Rabbo D, Mee MW, Boutros PC; PCAWG Drivers and Functional Interpretation Working Group; Reimand J; PCAWG Consortium. Paczkowska M, et al. Nat Commun. 2020 Feb 5;11(1):735. doi: 10.1038/s41467-019-13983-9. Nat Commun. 2020. PMID: 32024846 Free PMC article.
Inferring structural variant cancer cell fraction.
Cmero M, Yuan K, Ong CS, Schröder J; PCAWG Evolution and Heterogeneity Working Group; Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G; PCAWG Consortium. Cmero M, et al. Nat Commun. 2020 Feb 5;11(1):730. doi: 10.1038/s41467-020-14351-8. Nat Commun. 2020. PMID: 32024845 Free PMC article.
High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations.
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Genomic footprints of activated telomere maintenance mechanisms in cancer.
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Treatment-Induced Tumor Dormancy through YAP-Mediated Transcriptional Reprogramming of the Apoptotic Pathway.
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Longitudinal molecular trajectories of diffuse glioma in adults.
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Increasing value of autopsies in patients with brain tumors in the molecular era.
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Mitogenic and progenitor gene programmes in single pilocytic astrocytoma cells.
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Towards Immunotherapy for Pediatric Brain Tumors.
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Neuronal differentiation and cell-cycle programs mediate response to BET-bromodomain inhibition in MYC-driven medulloblastoma.
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Renal medullary carcinomas depend upon SMARCB1 loss and are sensitive to proteasome inhibition.
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Molecular profiling and targeted therapy in pediatric gliomas: review and consensus recommendations.
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Resistance to Epigenetic-Targeted Therapy Engenders Tumor Cell Vulnerabilities Associated with Enhancer Remodeling.
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Management of pediatric low-grade glioma.
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Dual HDAC and PI3K Inhibition Abrogates NFκB- and FOXM1-Mediated DNA Damage Response to Radiosensitize Pediatric High-Grade Gliomas.
Pal S, Kozono D, Yang X, Fendler W, Fitts W, Ni J, Alberta JA, Zhao J, Liu KX, Bian J, Truffaux N, Weiss WA, Resnick AC, Bandopadhayay P, Ligon KL, DuBois SG, Mueller S, Chowdhury D, Haas-Kogan DA. Pal S, et al. Among authors: bandopadhayay p. Cancer Res. 2018 Jul 15;78(14):4007-4021. doi: 10.1158/0008-5472.CAN-17-3691. Epub 2018 May 14. Cancer Res. 2018. PMID: 29760046 Free PMC article.
Prospective feasibility and safety assessment of surgical biopsy for patients with newly diagnosed diffuse intrinsic pontine glioma.
Gupta N, Goumnerova LC, Manley P, Chi SN, Neuberg D, Puligandla M, Fangusaro J, Goldman S, Tomita T, Alden T, DiPatri A, Rubin JB, Gauvain K, Limbrick D, Leonard J, Geyer JR, Leary S, Browd S, Wang Z, Sood S, Bendel A, Nagib M, Gardner S, Karajannis MA, Harter D, Ayyanar K, Gump W, Bowers DC, Weprin B, MacDonald TJ, Aguilera D, Brahma B, Robison NJ, Kiehna E, Krieger M, Sandler E, Aldana P, Khatib Z, Ragheb J, Bhatia S, Mueller S, Banerjee A, Bredlau AL, Gururangan S, Fuchs H, Cohen KJ, Jallo G, Dorris K, Handler M, Comito M, Dias M, Nazemi K, Baird L, Murray J, Lindeman N, Hornick JL, Malkin H, Sinai C, Greenspan L, Wright KD, Prados M, Bandopadhayay P, Ligon KL, Kieran MW. Gupta N, et al. Among authors: bandopadhayay p. Neuro Oncol. 2018 Oct 9;20(11):1547-1555. doi: 10.1093/neuonc/noy070. Neuro Oncol. 2018. PMID: 29741745 Free PMC article.
Case-based review: pediatric medulloblastoma.
Kline CN, Packer RJ, Hwang EI, Raleigh DR, Braunstein S, Raffel C, Bandopadhayay P, Solomon DA, Aboian M, Cha S, Mueller S. Kline CN, et al. Among authors: bandopadhayay p. Neurooncol Pract. 2017 Sep;4(3):138-150. doi: 10.1093/nop/npx011. Epub 2017 Aug 11. Neurooncol Pract. 2017. PMID: 29692919 Free PMC article. Review.
Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq.
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, van Galen P, Bonal DM, Nguyen QD, Beck A, Sinai C, Czech T, Dorfer C, Goumnerova L, Lavarino C, Carcaboso AM, Mora J, Mylvaganam R, Luo CC, Peyrl A, Popović M, Azizi A, Batchelor TT, Frosch MP, Martinez-Lage M, Kieran MW, Bandopadhayay P, Beroukhim R, Fritsch G, Getz G, Rozenblatt-Rosen O, Wucherpfennig KW, Louis DN, Monje M, Slavc I, Ligon KL, Golub TR, Regev A, Bernstein BE, Suvà ML. Filbin MG, et al. Among authors: bandopadhayay p. Science. 2018 Apr 20;360(6386):331-335. doi: 10.1126/science.aao4750. Science. 2018. PMID: 29674595 Free PMC article.
Landscapes of childhood tumours.
Bandopadhayay P, Meyerson M. Bandopadhayay P, et al. Nature. 2018 Mar 15;555(7696):316-317. doi: 10.1038/d41586-018-01648-4. Nature. 2018. PMID: 29542703 No abstract available.
SvABA: genome-wide detection of structural variants and indels by local assembly.
Wala JA, Bandopadhayay P, Greenwald NF, 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, Imielinski M, Beroukhim R. Wala JA, et al. Among authors: bandopadhayay p. Genome Res. 2018 Apr;28(4):581-591. doi: 10.1101/gr.221028.117. Epub 2018 Mar 13. Genome Res. 2018. PMID: 29535149 Free PMC article.
Immunophenotyping of pediatric brain tumors: correlating immune infiltrate with histology, mutational load, and survival and assessing clonal T cell response.
Plant AS, Koyama S, Sinai C, Solomon IH, Griffin GK, Ligon KL, Bandopadhayay P, Betensky R, Emerson R, Dranoff G, Kieran MW, Ritz J. Plant AS, et al. Among authors: bandopadhayay p. J Neurooncol. 2018 Apr;137(2):269-278. doi: 10.1007/s11060-017-2737-9. Epub 2018 Jan 10. J Neurooncol. 2018. PMID: 29322427
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