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Page 1
Author Correction: A diverse landscape of FGFR alterations and co-mutations suggests potential therapeutic strategies in pediatric low-grade gliomas.
Apfelbaum AA, Morin E, Sturm D, Ayoub G, DiGiacomo J, Bahadur S, Chandarana B, Power PC, Cusick MM, Novikov D, Prabhakar P, Jones RE, Vogelzang J, Bossi CC, Malinowski S, Woodward LM, Jones TA, Jeang J, Lamson SW, Collins J, Cai KY, Jones JS, Oh S, Jeon H, Wang J, Cameron A, Rechter P, De Leon A, Murugesan K, Montesion M, Albacker LA, Ramkissoon SH, van Tilburg CM, Hardin EC, Sievers P, Sahm F, Yeo KK, Rosenberg T, Chi SN, Wright KD, Hébert S, Peck S, Picca A, Larouche V, Renzi S, Buhrlage SJ, Bale TA, Smith AA, Touat M, Jabado N, Fischer ES, Eck MJ, Baird L, Witt O, Kleinman CL, Nguyen QD, Sheer D, Alexandrescu S, Jones DTW, Ligon KL, Bandopadhayay P. Apfelbaum AA, et al. Among authors: bandopadhayay p. Nat Commun. 2025 Oct 9;16(1):8970. doi: 10.1038/s41467-025-64919-5. Nat Commun. 2025. PMID: 41068145 Free PMC article. No abstract available.
A diverse landscape of FGFR alterations and co-mutations suggests potential therapeutic strategies in pediatric low-grade gliomas.
Apfelbaum AA, Morin E, Sturm D, Ayoub G, DiGiacomo J, Bahadur S, Chandarana B, Power PC, Cusick MM, Novikov D, Prabhakar P, Jones RE, Vogelzang J, Bossi CC, Malinowski S, Woodward LM, Jones TA, Jeang J, Lamson SW, Collins J, Cai KY, Jones JS, Oh S, Jeon H, Wang J, Cameron A, Rechter P, De Leon A, Murugesan K, Montesion M, Albacker LA, Ramkissoon SH, van Tilburg CM, Hardin EC, Sievers P, Sahm F, Yeo KK, Rosenberg T, Chi SN, Wright KD, Hébert S, Peck S, Picca A, Larouche V, Renzi S, Buhrlage SJ, Bale TA, Smith AA, Touat M, Jabado N, Fischer ES, Eck MJ, Baird L, Witt O, Kleinman CL, Nguyen QD, Sheer D, Alexandrescu S, Jones DTW, Ligon KL, Bandopadhayay P. Apfelbaum AA, et al. Among authors: bandopadhayay p. Nat Commun. 2025 Jul 31;16(1):7018. doi: 10.1038/s41467-025-61820-z. Nat Commun. 2025. PMID: 40744913 Free PMC article.
Deep learning volumetrics reveal distinct clinical trajectories for pediatric low-grade gliomas under surveillance: A multicenter study.
Climent Pardo JC, Zapaishchykova A, Boyd A, Tak D, Zielke J, Mahootiha M, Ye Z, Vajapeyam S, Jones J, Smith C, Familiar AM, Nabavizadeh A, Bandopadhayay P, Mueller S, Aerts HJWL, Haas-Kogan DA, Michor F, Ligon KL, Poussaint TY, Faghihroohi S, Kann BH. Climent Pardo JC, et al. Among authors: bandopadhayay p. Neurooncol Adv. 2025 Jul 1;7(1):vdaf145. doi: 10.1093/noajnl/vdaf145. eCollection 2025 Jan-Dec. Neurooncol Adv. 2025. PMID: 40718648 Free PMC article.
Longitudinal Risk Prediction for Pediatric Glioma with Temporal Deep Learning.
Tak D, Garomsa BA, Zapaishchykova A, Ye Z, Vajapeyam S, Mahootiha M, Pardo JCC, Smith C, Familiar AM, Chaunzwa TL, Liu KX, Prabhu SP, Bandopadhayay P, Nabavizadeh A, Mueller S, Aerts HJWL, Haas-Kogan D, Poussaint TY, Kann BH. Tak D, et al. Among authors: bandopadhayay p. NEJM AI. 2025 May;2(5):10.1056/aioa2400703. doi: 10.1056/aioa2400703. Epub 2025 Apr 24. NEJM AI. 2025. PMID: 40535328 Free PMC article.
Effective targeting of PDGFRA-altered high-grade glioma with avapritinib.
Mayr L, Neyazi S, Schwark K, Trissal M, Beck A, Labelle J, Eder SK, Weiler-Wichtl L, Marques JG, de Biagi-Junior CAO, Lo Cascio C, Chapman O, Sridhar S, Kenkre R, Dutta A, Wang S, Wang J, Hack O, Nascimento A, Nguyen CM, Castellani S, Rozowsky JS, Groves A, Panditharatna E, Cruzeiro GAV, Haase RD, Tabatabai K, Madlener S, Wadden J, Adam T, Kong S, Miclea M, Patel T, Bruckner K, Senfter D, Lämmerer A, Supko J, Guntner AS, Palova H, Neradil J, Stepien N, Lötsch-Gojo D, Berger W, Leiss U, Rosenmayr V, Dorfer C, Dieckmann K, Peyrl A, Azizi AA, Baumgartner A, Slaby O, Pokorna P, Clark LM, Cameron A, Nguyen QD, Wakimoto H, Dubois F, Greenwald NF, Bandopadhayay P, Beroukhim R, Ligon K, Kramm C, Bronsema A, Bailey S, Stucklin AG, Mueller S, Skrypek M, Martinez N, Bowers DC, Jones DTW, Jones C, Jäger N, Sterba J, Müllauer L, Haberler C, Kumar-Sinha C, Chinnaiyan A, Mody R, Chavez L, Furtner J, Koschmann C, Gojo J, Filbin MG. Mayr L, et al. Among authors: bandopadhayay p. Cancer Cell. 2025 Apr 14;43(4):740-756.e8. doi: 10.1016/j.ccell.2025.02.018. Epub 2025 Mar 13. Cancer Cell. 2025. PMID: 40086436
A compendium of Amplification-Related Gain Of Sensitivity genes in human cancer.
Rendo V, Schubert M, Khuu N, Suarez Peredo Rodriguez MF, Whyte D, Ling X, van den Brink A, Huang K, Swift M, He Y, Zerbib J, Smith R, Raaijmakers J, Bandopadhayay P, Guenther LM, Hwang JH, Iniguez A, Moody S, Seo JH, Stover EH, Garraway L, Hahn WC, Stegmaier K, Medema RH, Chowdhury D, Colomé-Tatché M, Ben-David U, Beroukhim R, Foijer F. Rendo V, et al. Among authors: bandopadhayay p. Nat Commun. 2025 Jan 27;16(1):1077. doi: 10.1038/s41467-025-56301-2. Nat Commun. 2025. PMID: 39870664 Free PMC article.
A foundation model for generalized brain MRI analysis.
Tak D, Garomsa BA, Chaunzwa TL, Zapaishchykova A, Climent Pardo JC, Ye Z, Zielke J, Ravipati Y, Vajapeyam S, Mahootiha M, Smith C, Familiar AM, Liu KX, Prabhu S, Bandopadhayay P, Nabavizadeh A, Mueller S, Aerts HJ, Huang RY, Poussaint TY, Kann BH. Tak D, et al. Among authors: bandopadhayay p. medRxiv [Preprint]. 2024 Dec 3:2024.12.02.24317992. doi: 10.1101/2024.12.02.24317992. medRxiv. 2024. PMID: 39677480 Free PMC article. Preprint.
Pediatric neuro-oncology: Highlights of the last quarter-century.
Power P, Straehla JP, Fangusaro J, Bandopadhayay P, Manoharan N. Power P, et al. Among authors: bandopadhayay p. Neoplasia. 2025 Jan;59:101098. doi: 10.1016/j.neo.2024.101098. Epub 2024 Dec 4. Neoplasia. 2025. PMID: 39637686 Free PMC article. Review.
FOXR2 Targets LHX6+/DLX+ Neural Lineages to Drive Central Nervous System Neuroblastoma.
Jessa S, De Cola A, Chandarana B, McNicholas M, Hébert S, Ptack A, Faury D, Tsai JW, Korshunov A, Phoenix TN, Ellezam B, Jones DTW, Taylor MD, Bandopadhayay P, Pathania M, Jabado N, Kleinman CL. Jessa S, et al. Among authors: bandopadhayay p. Cancer Res. 2025 Jan 15;85(2):231-250. doi: 10.1158/0008-5472.CAN-24-2248. Cancer Res. 2025. PMID: 39495206 Free PMC article.
Multimodal deep learning improves recurrence risk prediction in pediatric low-grade gliomas.
Mahootiha M, Tak D, Ye Z, Zapaishchykova A, Likitlersuang J, Climent Pardo JC, Boyd A, Vajapeyam S, Chopra R, Prabhu SP, Liu KX, Elhalawani H, Nabavizadeh A, Familiar A, Mueller S, Aerts HJWL, Bandopadhayay P, Ligon KL, Haas-Kogan D, Poussaint TY, Qadir HA, Balasingham I, Kann BH. Mahootiha M, et al. Among authors: bandopadhayay p. Neuro Oncol. 2025 Jan 12;27(1):277-290. doi: 10.1093/neuonc/noae173. Neuro Oncol. 2025. PMID: 39211987 Free PMC article.
Author Correction: Molecular profiling of 888 pediatric tumors informs future precision trials and data-sharing initiatives in pediatric cancer.
Forrest SJ, Gupta H, Ward A, Li YY, Doan D, Al-Ibraheemi A, Alexandrescu S, Bandopadhayay P, Shusterman S, Mullen EA, Collins NB, Chi SN, Wright KD, Kumari P, Mazor T, Ligon KL, Shivdasani P, Manam M, MacConaill LE, Ceca E, Benich SN, London WB, Schilsky RL, Bruinooge SS, Guidry Auvil JM, Cerami E, Rollins BJ, Meyerson ML, Lindeman NI, Johnson BE, Cherniack AD, Church AJ, Janeway KA. Forrest SJ, et al. Among authors: bandopadhayay p. Nat Commun. 2024 Aug 22;15(1):7218. doi: 10.1038/s41467-024-51184-1. Nat Commun. 2024. PMID: 39174503 Free PMC article. No abstract available.
Molecular profiling of 888 pediatric tumors informs future precision trials and data-sharing initiatives in pediatric cancer.
Forrest SJ, Gupta H, Ward A, Li YY, Doan D, Al-Ibraheemi A, Alexandrescu S, Bandopadhayay P, Shusterman S, Mullen EA, Collins NB, Chi SN, Wright KD, Kumari P, Mazor T, Ligon KL, Shivdasani P, Manam M, MacConaill LE, Ceca E, Benich SN, London WB, Schilsky RL, Bruinooge SS, Guidry Auvil JM, Cerami E, Rollins BJ, Meyerson ML, Lindeman NI, Johnson BE, Cherniack AD, Church AJ, Janeway KA. Forrest SJ, et al. Among authors: bandopadhayay p. Nat Commun. 2024 Jul 11;15(1):5837. doi: 10.1038/s41467-024-49944-0. Nat Commun. 2024. PMID: 38992034 Free PMC article.
Longitudinal risk prediction for pediatric glioma with temporal deep learning.
Tak D, Garomsa BA, Zapaishchykova A, Ye Z, Vajapeyam S, Mahootiha M, Climent Pardo JC, Smith C, Familiar AM, Chaunzwa T, Liu KX, Prabhu S, Bandopadhayay P, Nabavizadeh A, Mueller S, Aerts HJ, Haas-Kogan D, Poussaint TY, Kann BH. Tak D, et al. Among authors: bandopadhayay p. medRxiv [Preprint]. 2024 Jun 28:2024.06.04.24308434. doi: 10.1101/2024.06.04.24308434. medRxiv. 2024. Update in: NEJM AI. 2025 May;2(5). doi: 10.1056/aioa2400703. PMID: 38978642 Free PMC article. Updated. Preprint.
Resistance, rebound, and recurrence regrowth patterns in pediatric low-grade glioma treated by MAPK inhibition: A modified Delphi approach to build international consensus-based definitions-International Pediatric Low-Grade Glioma Coalition.
O'Hare P, Cooney T, de Blank P, Gutmann DH, Kieran M, Milde T, Fangusaro J, Fisher M, Avula S, Packer R, Fukuoka K, Mankad K, Mueller S, Waanders AJ, Opocher E, Bouffet E, Raabe E, Werle NE, Azizi AA, Robison NJ, Hernáiz Driever P, Russo M, Schouten N, van Tilburg CM, Sehested A, Grill J, Bandopadhayay P, Kilday JP, Witt O, Ashley DM, Ertl-Wagner BB, Tabori U, Hargrave DR. O'Hare P, et al. Among authors: bandopadhayay p. Neuro Oncol. 2024 Aug 5;26(8):1357-1366. doi: 10.1093/neuonc/noae074. Neuro Oncol. 2024. PMID: 38743009 Free PMC article.
Noninvasive Molecular Subtyping of Pediatric Low-Grade Glioma with Self-Supervised Transfer Learning.
Tak D, Ye Z, Zapaischykova A, Zha Y, Boyd A, Vajapeyam S, Chopra R, Hayat H, Prabhu SP, Liu KX, Elhalawani H, Nabavizadeh A, Familiar A, Resnick AC, Mueller S, Aerts HJWL, Bandopadhayay P, Ligon KL, Haas-Kogan DA, Poussaint TY, Kann BH. Tak D, et al. Among authors: bandopadhayay p. Radiol Artif Intell. 2024 May;6(3):e230333. doi: 10.1148/ryai.230333. Radiol Artif Intell. 2024. PMID: 38446044 Free PMC article.
Unraveling the complexity of the senescence-associated secretory phenotype in adamantinomatous craniopharyngioma using multimodal machine learning analysis.
Prince EW, Apps JR, Jeang J, Chee K, Medlin S, Jackson EM, Dudley R, Limbrick D, Naftel R, Johnston J, Feldstein N, Prolo LM, Ginn K, Niazi T, Smith A, Kilburn L, Chern J, Leonard J, Lam S, Hersh DS, Gonzalez-Meljem JM, Amani V, Donson AM, Mitra SS, Bandopadhayay P, Martinez-Barbera JP, Hankinson TC. Prince EW, et al. Among authors: bandopadhayay p. Neuro Oncol. 2024 Jun 3;26(6):1109-1123. doi: 10.1093/neuonc/noae015. Neuro Oncol. 2024. PMID: 38334125 Free PMC article.
Aberrant DNA repair reveals a vulnerability in histone H3.3-mutant brain tumors.
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, Hamadat S, Bertin C, Crane A, Dubois F, Forne I, Imhof A, Bandopadhayay P, Beroukhim R, Naim V, Jia S, Hawkins C, Rondinelli B, Polo SE. Giacomini G, et al. Among authors: bandopadhayay p. Nucleic Acids Res. 2024 Mar 21;52(5):2372-2388. doi: 10.1093/nar/gkad1257. Nucleic Acids Res. 2024. PMID: 38214234 Free PMC article.
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. Mol Cell. 2024 Jan 18;84(2):261-276.e18. doi: 10.1016/j.molcel.2023.12.003. Epub 2024 Jan 3. Mol Cell. 2024. PMID: 38176414 Free PMC article.
Consensus framework for conducting phase I/II clinical trials for children, adolescents, and young adults with pediatric low-grade glioma: Guidelines established by the International Pediatric Low-Grade Glioma Coalition Clinical Trial Working Group.
Mueller S, Fangusaro J, Thomas AO, Jacques TS, Bandopadhayay P, de Blank P, Packer RJ, Fouladi M, van Meeteren AS, Jones D, Perry A, Nakano Y, Hargrave D, Riedl D, Robison NJ, Partanen M, Fisher MJ, Witt O. Mueller S, et al. Among authors: bandopadhayay p. Neuro Oncol. 2024 Mar 4;26(3):407-416. doi: 10.1093/neuonc/noad227. Neuro Oncol. 2024. PMID: 38146999 Free PMC article.
A road map for the treatment of pediatric diffuse midline glioma.
Koschmann C, Al-Holou WN, Alonso MM, Anastas J, Bandopadhayay P, Barron T, Becher O, Cartaxo R, Castro MG, Chung C, Clausen M, Dang D, Doherty R, Duchatel R, Dun M, Filbin M, Franson A, Galban S, Garcia Moure M, Garton H, Gowda P, Marques JG, Hawkins C, Heath A, Hulleman E, Ji S, Jones C, Kilburn L, Kline C, Koldobskiy MA, Lim D, Lowenstein PR, Lu QR, Lum J, Mack S, Magge S, Marini B, Martin D, Marupudi N, Messinger D, Mody R, Morgan M, Mota M, Muraszko K, Mueller S, Natarajan SK, Nazarian J, Niculcea M, Nuechterlein N, Okada H, Opipari V, Pai MP, Pal S, Peterson E, Phoenix T, Prensner JR, Pun M, Raju GP, Reitman ZJ, Resnick A, Rogawski D, Saratsis A, Sbergio SG, Souweidane M, Stafford JM, Tzaridis T, Venkataraman S, Vittorio O, Wadden J, Wahl D, Wechsler-Reya RJ, Yadav VN, Zhang X, Zhang Q, Venneti S. Koschmann C, et al. Among authors: bandopadhayay p. Cancer Cell. 2024 Jan 8;42(1):1-5. doi: 10.1016/j.ccell.2023.11.002. Epub 2023 Nov 30. Cancer Cell. 2024. PMID: 38039965 Free PMC article.
Pediatric low-grade glioma: State-of-the-art and ongoing challenges.
Fangusaro J, Jones DT, Packer RJ, Gutmann DH, Milde T, Witt O, Mueller S, Fisher MJ, Hansford JR, Tabori U, Hargrave D, Bandopadhayay P. Fangusaro J, et al. Among authors: bandopadhayay p. Neuro Oncol. 2024 Jan 5;26(1):25-37. doi: 10.1093/neuonc/noad195. Neuro Oncol. 2024. PMID: 37944912 Free PMC article. Review.
Indoximod-based chemo-immunotherapy for pediatric brain tumors: A first-in-children phase I 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. 2024 Feb 2;26(2):348-361. doi: 10.1093/neuonc/noad174. Neuro Oncol. 2024. PMID: 37715730 Free PMC article. Clinical Trial.
Noninvasive molecular subtyping of pediatric low-grade glioma with self-supervised transfer learning.
Tak D, Ye Z, Zapaishchykova A, Zha Y, Boyd A, Vajapeyam S, Chopra R, Hayat H, Prabhu S, Liu KX, Elhalawani H, Nabavizadeh A, Familiar A, Resnick A, Mueller S, Aerts HJWL, Bandopadhayay P, Ligon K, Haas-Kogan D, Poussaint T, Kann BH. Tak D, et al. Among authors: bandopadhayay p. medRxiv [Preprint]. 2023 Nov 22:2023.08.04.23293673. doi: 10.1101/2023.08.04.23293673. medRxiv. 2023. Update in: Radiol Artif Intell. 2024 May;6(3):e230333. doi: 10.1148/ryai.230333. PMID: 37609311 Free PMC article. Updated. Preprint.
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 [Preprint]. 2023 May 6:2023.05.04.539399. doi: 10.1101/2023.05.04.539399. bioRxiv. 2023. Update in: Mol Cell. 2024 Jan 18;84(2):261-276.e18. doi: 10.1016/j.molcel.2023.12.003. PMID: 37205492 Free PMC article. Updated. Preprint.
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 Free PMC article.
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.
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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. 2020 Feb;578(7793):102-111. doi: 10.1038/s41586-020-1965-x. Epub 2020 Feb 5. Nature. 2020. PMID: 32025015 Free PMC article.
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. 2020 Feb;578(7793):122-128. doi: 10.1038/s41586-019-1907-7. Epub 2020 Feb 6. Nature. 2020. PMID: 32025013 Free PMC article.
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. 2020 Feb;578(7793):112-121. doi: 10.1038/s41586-019-1913-9. Epub 2020 Feb 5. Nature. 2020. PMID: 32025012 Free PMC article.
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. 2020 Feb;578(7793):82-93. doi: 10.1038/s41586-020-1969-6. Epub 2020 Feb 5. Nature. 2020. PMID: 32025007 Free PMC article.
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. 2020 Mar;52(3):320-330. doi: 10.1038/s41588-019-0558-9. Epub 2020 Feb 5. Nat Genet. 2020. PMID: 32025001 Free PMC article.
Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition.
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Comprehensive molecular characterization of mitochondrial genomes in human cancers.
Yuan Y, Ju YS, Kim Y, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim HL, Nakagawa H, Park K, Campbell PJ, Liang H; PCAWG Consortium. Yuan Y, et al. Nat Genet. 2020 Mar;52(3):342-352. doi: 10.1038/s41588-019-0557-x. Epub 2020 Feb 5. Nat Genet. 2020. PMID: 32024997 Free PMC article.
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. 2020 Feb 5;11(1):729. doi: 10.1038/s41467-020-14367-0. Nat Commun. 2020. PMID: 32024854 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.
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