Hoffmann Research Group

Publications at FLI

2020

  • Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.
    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
    Nat Genet 2020, 52(3), 294-305
  • 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
    Nature 2020, 578(7793), 94-101
  • Pan-cancer analysis of whole genomes.
    Campbell PJ, Getz G, Korbel Jea, ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium
    Nature 2020, 578(7793), 82-93
  • Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.
    Cortés-Ciriano I, Lee JJK, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, PCAWG Structural Variation Working Group, Park PJ, PCAWG Consortium
    Nat Genet 2020, 52(3), 331
  • 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 and Heterogeneity Working Group, Spellman PT, Wedge DC, Van Loo P, PCAWG Consortium
    Nature 2020, 578(7793), 122-8
  • Dichotomous Impact of Myc on rRNA Gene Activation and Silencing in B Cell Lymphomagenesis.
    Joshi* G, Eberhardt* AO, Lange L, Winkler R, Hoffmann S, Kosan C, Bierhoff H
    Cancers (Basel) 2020, 12(10), E3009. doi: 10.3390/cancers12103 * equal contribution
  • Bashing irreproducibility with shournal
    Kirchner T, Riege K, Hoffmann S
    bioRxiv 2020, https://doi.org/10.1101/2020.08.
  • 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
    Nature 2020, 578(7793), 112-21
  • ConCysFind: a pipeline tool to predict conserved amino acids of protein sequences across the plant kingdom
    Moore M, Wesemann C, Gossmann N, Sahm A, Krüger J, Sczyrba A, Dietz KJ
    BMC Bioinformatics 2020, 21(1), 490
  • 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
    Nature 2020, 578(7793), 129-36