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David Liu, M.D.

  1. Critical Care Specialist
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Publications

  1. Zhang T, Hua X, Mohindroo C, Wang X, Dutta D, Liu J, Katta S, Li SA, Wang J, Antwi SO, Arslan AA, Beane Freeman LE, Bracci PM, Canzian F, Du M, Gallinger S, Goodman PJ, Katzke V, Kooperberg C, Le Marchand L, Neale RE, Patel AV, Perdomo S, Shu XO, Visvanathan K, Van Den Eeden SK, White E, Zheng W, Albanes D, Andreotti G, Bamlet WR, Brennan P, Buring JE, Chanock SJ, Chen Y, Darst B, Ferrari P, Giovannucci EL, Goggins M, Haiman C, Hassan M, Holly EA, Hung RJ, Jones MR, Kraft P, Kurtz RC, Malats N, Moore SC, Ng K, Oberg AL, Orlow I, Peters U, Porta M, Rabe KG, Rothman N, Sanchez MJ, Sesso HD, Silverman DT, Southey MC, Um CY, Yarmolinsky J, Yu H, Yuan C, Zhong J, Wolpin BM, Risch HA, Amundadottir LT, Klein AP, Yu K, Zhang H, Stolzenberg-Solomon RZ. Different diabetes types and pancreatic ductal adenocarcinoma: a Mendelian randomization and pathway/gene-set analysis. J Natl Cancer Inst. 2026 Mar 1; 118 (3):437-447
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  2. Blechter B, Wang X, Dai J, Karsonaki C, Shi J, Shiraishi K, Choi J, Matsuo K, Chen TY, Hung RJ, Chen K, Shu XO, Kim YT, Choudhury PP, Williams J, Landi MT, Lin D, Zheng W, Yin Z, Zhou B, Wang J, Seow WJ, Song L, Chang IS, Hu W, Chien LH, Cai Q, Hong YC, Kim HN, Wu YL, Wong MP, Richardson BD, Li S, Zhang T, Breeze C, Wang Z, Bassig BA, Kim JH, Albanes D, Wong Sm JY, Shin MH, Chung LP, Yang Y, Zheng H, Dai H, Yatabe Y, Zhang XC, Kim YC, Caporaso NE, Chang J, Ho JCM, Daigo Y, Momozawa Y, Kamatani Y, Kobayashi M, Okubo K, Honda T, Hosgood HD, Kunitoh H, Watanabe SI, Miyagi Y, Matsumoto S, Horinouchi H, Tsuboi M, Hamamoto R, Goto K, Takahashi A, Goto A, Minamiya Y, Hara M, Nishida Y, Takeuchi K, Wakai K, Matsuda K, Murakami Y, Shimizu K, Suzuki H, Saito M, Ohtaki Y, Tanaka K, Wu T, Wei F, Machiela MJ, Kim YH, Oh IJ, Lee VHF, Chang GC, Chen KY, Su WC, Chen YM, Seow A, Park JY, Kweon SS, Gao YT, Liu J, Schwartz AG, Houlston R, Gorlov IP, Wu X, Yang P, Lam S, Tardon A, Chen C, Bojesen SE, Johansson M, Risch A, Bickeboller H, Ji BT, Wichmann HE, Christiani DC, Rennert G, Arnold SM, Brennan P, McKay J, Field JK, Davies MPA, Shete SS, Le Marchand L, Liu G, Andrew AS, Kiemeney LA, Zienolddiny-Narui S, Grankvist K, Cox A, Taylor F, Yuan JM, Lazarus P, Schabath MB, Aldrich MC, Jeon HS, Jiang SS, Chen CH, Hsiao CF, Hu Z, Burdett L, Yeager M, Hutchinson A, Hicks B, Liu J, Berndt SI, Wu W, Wang J, Li Y, Choi JE, Park KH, Sung SW, Kang CH, Wang WC, Xu J, Guan P, Tan W, Yu CJ, Yang G, Sihoe ADL, Choi YY, Park IK, Hung HH, Vermeulen RCH, Cheng I, Wu J, Tsai FY, Chan JKC, Li J, Lin HC, Liu J, Song B, Sawada N, Yamaji T, Wyatt K, Ma H, Zhu M, Wang Y, Qi T, Li X, Ren Y, Chao A, Iwasaki M, Zhu J, Wu G, Chen CY, ScD CC, Yang PC, Stevens VL, Fraumeni JF Jr, Lin K, Walters RG, Chen Z, Chatterjee N, Gorlova OY, Amos CI, Shen H, Hsiung CA, Chanock SJ, Rothman N, Kohno T, Lan Q, Zhang H. Stratifying lung adenocarcinoma risk with multi-ancestry polygenic risk scores in East Asian never-smokers. J Natl Cancer Inst. 2025 Oct 1 Epub 2025 Oct 01
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  3. Ball JD, Hills E, Altaf A, Ramesh P, Green M, Surti FB, Minhas JS, Robinson TG, Bond B, Lester A, Hoiland R, Klein T, Liu J, Nasr N, Junejo RT, Muller M, Lecchini-Visintini A, Mitsis G, Burma JS, Smirl JD, Pizzi MA, Manquat E, Lucas SJ, Mullinger KJ, Mayhew S, Bailey DM, Rodrigues G, Soares PP, Phillips AA, Prokopiou PC, C Beishon L. Neurovascular coupling methods in healthy individuals using transcranial doppler ultrasonography: A systematic review and consensus agreement. J Cereb Blood Flow Metab. 2024 Dec; 44 (12):1409-1429 Epub 2024 Aug 07
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  4. Minas TZ, Lord BD, Zhang AL, Candia J, Dorsey TH, Baker FS, Tang W, Bailey-Whyte M, Smith CJ, Obadi OM, Ajao A, Jordan SV, Tettey Y, Biritwum RB, Adjei AA, Mensah JE, Hoover RN, Hsing AW, Liu J, Loffredo CA, Yates C, Cook MB, Ambs S. Circulating trans fatty acids are associated with prostate cancer in Ghanaian and American men. Nat Commun. 2023 Jul 19; 14 (1):4322 Epub 2023 July 19
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  5. 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. Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers. Nat Genet. 2023 Jun; 55 (6):1078
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  6. Cortes-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, Park PJ, PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing. Nat Genet. 2023 Jun; 55 (6):1076
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  7. Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sultmann H, Moch H, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Pathogens//PCAWG Consortium. Author Correction: The landscape of viral associations in human cancers. Nat Genet. 2023 Jun; 55 (6):1077
    View PubMed
  8. Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. Nat Genet. 2023 Jun; 55 (6):1079
    View PubMed
  9. 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, Puiggros 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, Campbell PJ, Tubio JMC, PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nat Genet. 2023 Jun; 55 (6):1080
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  10. Calabrese C, Davidson NR, Demircioglu 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-Hammarstrom 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, Brazma A, Brooks AN, Goke J, Ratsch G, Schwarz RF, Stegle O, Zhang Z, PCAWG Transcriptome Core Group//PCAWG Transcriptome Working Group//PCAWG Consortium. Author Correction: Genomic basis for RNA alterations in cancer. Nature. 2023 Feb; 614 (7948):E37
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  11. Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshoj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzos 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, Uuskula-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, Lopez-Bigas N, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nature. 2023 Feb; 614 (7948):E40
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  12. 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, Vazquez-Garcia 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, Spellman PT, Wedge DC, Van Loo P, PCAWG Evolution & Heterogeneity Working Group//PCAWG Consortium. Author Correction: The evolutionary history of 2,658 cancers. Nature. 2023 Feb; 614 (7948):E42
    View PubMed
  13. ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Author Correction: Pan-cancer analysis of whole genomes. Nature. 2023 Feb; 614 (7948):E39
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  14. 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, PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: Patterns of somatic structural variation in human cancer genomes. Nature. 2023 Feb; 614 (7948):E38
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  15. 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, Getz G, Rozen SG, Stratton MR, PCAWG Mutational Signatures Working Group//PCAWG Consortium. Author Correction: The repertoire of mutational signatures in human cancer. Nature. 2023 Feb; 614 (7948):E41
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  16. 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, Reimand J, Stuart JM, Raphael BJ, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes. Nat Commun. 2022 Dec 8; 13 (1):7566 Epub 2022 Dec 08
    View PubMed
  17. Bhandari V, Li CH, Bristow RG, Boutros PC, PCAWG Consortium. Author Correction: Divergent mutational processes distinguish hypoxic and normoxic tumours. Nat Commun. 2022 Dec 8; 13 (1):7569 Epub 2022 Dec 08
    View PubMed
  18. Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A, Creighton CJ, PCAWG Transcriptome Working Group//PCAWG Structural Variation Working Group//PCAWG Consortium. Author Correction: High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations. Nat Commun. 2022 Dec 8; 13 (1):7572 Epub 2022 Dec 08
    View PubMed
  19. Paczkowska M, Barenboim J, Sintupisut N, Fox NS, Zhu H, Abd-Rabbo D, Mee MW, Boutros PC, Reimand J, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Author Correction: Integrative pathway enrichment analysis of multivariate omics data. Nat Commun. 2022 Dec 8; 13 (1):7570 Epub 2022 Dec 08
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  20. Jiao W, Atwal G, Polak P, Karlic R, Cuppen E, Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD, PCAWG Tumor Subtypes and Clinical Translation Working Group//PCAWG Consortium. Author Correction: A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns. Nat Commun. 2022 Dec 8; 13 (1):7573 Epub 2022 Dec 08
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  21. Cmero M, Yuan K, Ong CS, Schroder J, Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G, PCAWG Evolution and Heterogeneity Working Group//PCAWG Consortium. Author Correction: Inferring structural variant cancer cell fraction. Nat Commun. 2022 Dec 8; 13 (1):7568 Epub 2022 Dec 08
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  22. Shuai S, Gallinger S, Stein LD, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Author Correction: Combined burden and functional impact tests for cancer driver discovery using DriverPower. Nat Commun. 2022 Dec 8; 13 (1):7571 Epub 2022 Dec 08
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  23. Sieverling L, Hong C, Koser SD, Ginsbach P, Kleinheinz K, Hutter B, Braun DM, Cortes-Ciriano I, Xi R, Kabbe R, Park PJ, Eils R, Schlesner M, Brors B, Rippe K, Jones DTW, Feuerbach L, PCAWG-Structural Variation Working Group//PCAWG Consortium. Author Correction: Genomic footprints of activated telomere maintenance mechanisms in cancer. Nat Commun. 2022 Dec 8; 13 (1):7574 Epub 2022 Dec 08
    View PubMed
  24. Rubanova Y, Shi R, Harrigan CF, Li R, Wintersinger J, Sahin N, Deshwar AG, Morris QD, PCAWG Evolution and Heterogeneity Working Group//PCAWG Consortium. Author Correction: Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. Nat Commun. 2022 Dec 8; 13 (1):7567 Epub 2022 Dec 08
    View PubMed
  25. Carlevaro-Fita J, Lanzos A, Feuerbach L, Hong C, Mas-Ponte D, Pedersen JS, Johnson R, PCAWG Drivers and Functional Interpretation Group//PCAWG Consortium. Author Correction: Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis. Commun Biol. 2022 Dec 8; 5 (1):1347 Epub 2022 Dec 08
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  26. Hoch VC, Abdel-Hamid M, Liu J, Hall AE, Theyyunni N, Fung CM. ED point-of-care ultrasonography is associated with earlier drainage of pericardial effusion: A retrospective cohort study. Am J Emerg Med. 2022 Oct; 60:156-163 Epub 2022 Aug 08
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  27. Liu J, Volz KA. Visual hallucination as presenting symptom for acute parieto-occipital cerebrovascular accident. Am J Emerg Med. 2022 Jul; 57:237.e1-237.e3 Epub 2022 Apr 30
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  28. Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, Ding L, MC3 Working Group//PCAWG novel somatic mutation calling methods working group//PCAWG Consortium. Author Correction: Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nat Commun. 2020 Nov 30; 11 (1):6232
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  29. Bailey MH, Meyerson WU, Dursi LJ, Wang LB, Dong G, Liang WW, Weerasinghe A, Li S, Li Y, Kelso S, Saksena G, Ellrott K, Wendl MC, Wheeler DA, Getz G, Simpson JT, Gerstein MB, Ding L, MC3 Working Group//PCAWG novel somatic mutation calling methods working group//PCAWG Consortium. Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nat Commun. 2020 Sep 21; 11 (1):4748 Epub 2020 Sept 21
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  30. Li CH, Prokopec SD, Sun RX, Yousif F, Schmitz N, Boutros PC, PCAWG Tumour Subtypes and Clinical Translation//PCAWG Consortium. Sex differences in oncogenic mutational processes. Nat Commun. 2020 Aug 28; 11 (1):4330
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  31. 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. Comprehensive molecular characterization of mitochondrial genomes in human cancers. Nat Genet. 2020 Mar; 52 (3):342-352 Epub 2020 Feb 05
    View PubMed
  32. 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, Puiggros 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, Campbell PJ, Tubio JMC, PCAWG Structural Variation Working Group//PCAWG Consortium. Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. Nat Genet. 2020 Mar; 52 (3):306-319 Epub 2020 Feb 05
    View PubMed
  33. Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group//PCAWG Consortium. Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer. Nat Genet. 2020 Mar; 52 (3):294-305 Epub 2020 Feb 05
    View PubMed
  34. Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sultmann H, Moch H, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Pathogens//PCAWG Consortium. The landscape of viral associations in human cancers. Nat Genet. 2020 Mar; 52 (3):320-330 Epub 2020 Feb 05
    View PubMed
  35. Cortes-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, Park PJ, PCAWG Structural Variation Working Group//PCAWG Consortium. Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing. Nat Genet. 2020 Mar; 52 (3):331-341 Epub 2020 Feb 05
    View PubMed
  36. Sieverling L, Hong C, Koser SD, Ginsbach P, Kleinheinz K, Hutter B, Braun DM, Cortes-Ciriano I, Xi R, Kabbe R, Park PJ, Eils R, Schlesner M, Brors B, Rippe K, Jones DTW, Feuerbach L, PCAWG-Structural Variation Working Group//PCAWG Consortium. Genomic footprints of activated telomere maintenance mechanisms in cancer. Nat Commun. 2020 Feb 5; 11 (1):733 Epub 2020 Feb 05
    View PubMed
  37. Shuai S, Gallinger S, Stein LD, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Combined burden and functional impact tests for cancer driver discovery using DriverPower. Nat Commun. 2020 Feb 5; 11 (1):734 Epub 2020 Feb 05
    View PubMed
  38. Bhandari V, Li CH, Bristow RG, Boutros PC, PCAWG Consortium. Divergent mutational processes distinguish hypoxic and normoxic tumours. Nat Commun. 2020 Feb 5; 11 (1):737 Epub 2020 Feb 05
    View PubMed
  39. Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A, Creighton CJ, PCAWG Transcriptome Working Group//PCAWG Structural Variation Working Group//PCAWG Consortium. High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations. Nat Commun. 2020 Feb 5; 11 (1):736 Epub 2020 Feb 05
    View PubMed
  40. Rubanova Y, Shi R, Harrigan CF, Li R, Wintersinger J, Sahin N, Deshwar AG, Morris QD, PCAWG Evolution and Heterogeneity Working Group//PCAWG Consortium. Reconstructing evolutionary trajectories of mutation signature activities in cancer using TrackSig. Nat Commun. 2020 Feb 5; 11 (1):731 Epub 2020 Feb 05
    View PubMed
  41. Cmero M, Yuan K, Ong CS, Schroder J, Corcoran NM, Papenfuss T, Hovens CM, Markowetz F, Macintyre G, PCAWG Evolution and Heterogeneity Working Group//PCAWG Consortium. Inferring structural variant cancer cell fraction. Nat Commun. 2020 Feb 5; 11 (1):730 Epub 2020 Feb 05
    View PubMed
  42. Paczkowska M, Barenboim J, Sintupisut N, Fox NS, Zhu H, Abd-Rabbo D, Mee MW, Boutros PC, Reimand J, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Integrative pathway enrichment analysis of multivariate omics data. Nat Commun. 2020 Feb 5; 11 (1):735 Epub 2020 Feb 05
    View PubMed
  43. Jiao W, Atwal G, Polak P, Karlic R, Cuppen E, Danyi A, de Ridder J, van Herpen C, Lolkema MP, Steeghs N, Getz G, Morris QD, Stein LD, PCAWG Tumor Subtypes and Clinical Translation Working Group//PCAWG Consortium. A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns. Nat Commun. 2020 Feb 5; 11 (1):728 Epub 2020 Feb 05
    View PubMed
  44. 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, Reimand J, Stuart JM, Raphael BJ, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Consortium. Pathway and network analysis of more than 2500 whole cancer genomes. Nat Commun. 2020 Feb 5; 11 (1):729 Epub 2020 Feb 05
    View PubMed
  45. Carlevaro-Fita J, Lanzos A, Feuerbach L, Hong C, Mas-Ponte D, Pedersen JS, Johnson R, PCAWG Drivers and Functional Interpretation Group//PCAWG Consortium. Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis. Commun Biol. 2020 Feb 5; 3 (1):56 Epub 2020 Feb 05
    View PubMed
  46. ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Pan-cancer analysis of whole genomes. Nature. 2020 Feb; 578 (7793):82-93 Epub 2020 Feb 05
    View PubMed
  47. 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, PCAWG Structural Variation Working Group//PCAWG Consortium. Patterns of somatic structural variation in human cancer genomes. Nature. 2020 Feb; 578 (7793):112-121 Epub 2020 Feb 05
    View PubMed
  48. 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, Vazquez-Garcia 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, Spellman PT, Wedge DC, Van Loo P, PCAWG Evolution & Heterogeneity Working Group//PCAWG Consortium. The evolutionary history of 2,658 cancers. Nature. 2020 Feb; 578 (7793):122-128 Epub 2020 Feb 06
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  49. Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshoj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzos 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, Uuskula-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, Lopez-Bigas N, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G, PCAWG Drivers and Functional Interpretation Working Group//PCAWG Structural Variation Working Group//PCAWG Consortium. Analyses of non-coding somatic drivers in 2,658 cancer whole genomes. Nature. 2020 Feb; 578 (7793):102-111 Epub 2020 Feb 05
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  50. 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, Getz G, Rozen SG, Stratton MR, PCAWG Mutational Signatures Working Group//PCAWG Consortium. The repertoire of mutational signatures in human cancer. Nature. 2020 Feb; 578 (7793):94-101 Epub 2020 Feb 05
    View PubMed
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