2019

• Conservation and divergence of the p53 gene regulatory network between mice and humans.
  Fischer M
  Oncogene 2019, 38(21), 4095-109
  
• Genomic and transcriptomic changes complement each other in the pathogenesis of sporadic Burkitt lymphoma.
  López C, Kleinheinz K, Aukema SM, Rohde M, Bernhart SH, Hübschmann D, Wagener R, Toprak UH, Raimondi F, Kreuz M, Waszak SM, Huang Z, Sieverling L, Paramasivam N, Seufert J, Sungalee S, Russell RB, Bausinger J, Kretzmer H, Ammerpohl O, Bergmann AK, Binder H, Borkhardt A, Brors B, Claviez A, Doose G, Feuerbach L, Haake A, Hansmann ML, Hoell J, Hummel M, Korbel JO, Lawerenz C, Lenze D, Radlwimmer B, Richter J, Rosenstiel P, Rosenwald A, Schilhabel MB, Stein H, Stilgenbauer S, Stadler PF, Szczepanowski M, Weniger MA, Zapatka M, Eils R, Lichter P, Loeffler M, Möller P, Trümper L, Klapper W, ICGC MMML-Seq Consortium, Hoffmann S, Küppers R, Burkhardt B, Schlesner M, Siebert R
  Nat Commun 2019, 10(1), 1459
  
• RB, p130 and p107 differentially repress G1/S and G2/M genes after p53 activation.
  Schade AE, Fischer M, DeCaprio JA
  Nucleic Acids Res 2019, 47(21), 11197-208
  
• Gene expression profile of human T cells following a single stimulation of peripheral blood mononuclear cells with anti-CD3 antibodies.
  Sousa IG, Simi KCR, do Almo MM, Bezerra MAG, Doose G, Raiol T, Stadler PF, Hoffmann S, Maranhão AQ, Brigido MM
  BMC Genomics 2019, 20(1), 593
  
• DREAM and RB cooperate to induce gene repression and cell-cycle arrest in response to p53 activation.
  Uxa S, Bernhart SH, Mages CFS, Fischer M, Kohler R, Hoffmann S, Stadler PF, Engeland K, Müller GA
  Nucleic Acids Res 2019, 47(17), 9087-9103.
  

2018

• DIEGO: Detection of Differential Alternative Splicing using Aitchison's Geometry.
  Doose G, Bernhart SH, Wagener R, Hoffmann S
  Bioinformatics 2018, 34(6), 1066-8
  
• RBFOX2 and alternative splicing in B-cell lymphoma.
  Quentmeier H, Pommerenke C, Bernhart SH, Dirks WG, Hauer V, Hoffmann S, Nagel S, Siebert R, Uphoff CC, Zaborski M, Drexler HG, ICGC MMML-Seq Consortium
  Blood Cancer J 2018, 8(8), 77
  
• Higher gene expression stability during aging in long-lived giant mole-rats than in short-lived rats.
  Sahm A, Bens M, Henning Y, Vole C, Groth M, Schwab M, Hoffmann S, Platzer* M, Szafranski* K, Dammann* P
  Aging (Albany NY) 2018, 10(12), 3938-56 * equal contribution
  

2017

• Generalized enhanced suffix array construction in external memory.
  Louza FA, Telles GP, Hoffmann S, Ciferri CDA
  Algorithms Mol Biol 2017, 12, 26
  

2016

• Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells.
  Hölzer M, Krähling V, Amman F, Barth E, Bernhart SH, Carmelo VAO, Collatz M, Doose G, Eggenhofer F, Ewald J, Fallmann J, Feldhahn LM, Fricke M, Gebauer J, Gruber AJ, Hufsky F, Indrischek H, Kanton S, Linde J, Mostajo N, Ochsenreiter R, Riege K, Rivarola-Duarte L, Sahyoun AH, Saunders SJ, Seemann SE, Tanzer A, Vogel B, Wehner S, Wolfinger MT, Backofen R, Gorodkin J, Grosse I, Hofacker I, Hoffmann S, Kaleta C, Stadler PF, Becker S, Marz M
  Sci Rep 2016, 6, 34589