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Scientific Publications

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/ BMC Bioinformatics

scMaui: a widely applicable deep learning framework for single-cell multiomics integration in the presence of batch effects and missing data

  • Y. Jeong
  • J. Ronen
  • W. Kopp
  • P. Lutsik
  • A. Akalin
/ Nat Commun

Clinically used broad-spectrum antibiotics compromise inflammatory monocyte-dependent antibacterial defense in the lung

  • P.J. Dörner
  • H. Anandakumar
  • I. Röwekamp
  • F. Fiocca Vernengo
  • B. Millet Pascual-Leone
  • M. Krzanowski
  • J. Sellmaier
  • U. Brüning
  • R. Fritsche-Guenther
  • L. Pfannkuch
  • F. Kurth
  • M. Milek
  • V. Igbokwe
  • U. Löber
  • B. Gutbier
  • M. Holstein
  • G.A. Heinz
  • M.F. Mashreghi
  • L.N. Schulte
  • A.B. Klatt
  • S. Caesar
  • S.M. Wienhold
  • S. Offermanns
  • M. Mack
  • M. Witzenrath
  • S. Jordan
  • D. Beule
  • J.A. Kirwan
  • S.K. Forslund
  • N. Wilck
  • H. Bartolomaeus
  • M.M. Heimesaat
  • B. Opitz
/ Proc Natl Acad Sci U S A

IL-33 controls IL-22-dependent antibacterial defense by modulating the microbiota

  • I. Röwekamp
  • L. Maschirow
  • A. Rabes
  • F. Fiocca Vernengo
  • L. Hamann
  • G.A. Heinz
  • M.F. Mashreghi
  • S. Caesar
  • M. Milek
  • A.C. Fagundes Fonseca
  • S.M. Wienhold
  • G. Nouailles
  • L. Yao
  • S. Mousavi
  • D. Bruder
  • J.D. Boehme
  • M. Puzianowska-Kuznicka
  • D. Beule
  • M. Witzenrath
  • M. Löhning
  • C.S.N. Klose
  • M.M. Heimesaat
  • A. Diefenbach
  • B. Opitz
/ Cell Oncol

Robust detection of clinically relevant features in single-cell RNA profiles of patient-matched fresh and formalin-fixed paraffin-embedded (FFPE) lung cancer tissue

  • A. Trinks
  • M. Milek
  • D. Beule
  • J. Kluge
  • S. Florian
  • C. Sers
  • D. Horst
  • M. Morkel
  • P. Bischoff
/ Semin Cell Dev Biol

Transcriptome-wide analysis of protein-RNA interactions using high-throughput sequencing

  • M. Milek
  • E. Wyler
  • M. Landthaler
/ Mol Cell

The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts

  • A.G. Baltz
  • M. Munschauer
  • B. Schwanhaeusser
  • A. Vasile
  • Y. Murakawa
  • M. Schueler
  • N. Youngs
  • D. Penfold-Brown
  • K. Drew
  • M. Milek
  • E. Wyler
  • R. Bonneau
  • M. Selbach
  • C. Dieterich
  • M. Landthaler
/ F1000Res

netSmooth: network-smoothing based imputation for single cell RNA-seq

  • J. Ronen
  • A. Akalin
/ Cell Rep

Loss of m(1)acp(3)Ψ ribosomal RNA modification is a major feature of cancer

  • A. Babaian
  • K. Rothe
  • D. Girodat
  • I. Minia
  • S. Djondovic
  • M. Milek
  • S.E. Spencer Miko
  • H.J. Wieden
  • M. Landthaler
  • G.B. Morin
  • D.L. Mager
/ Proc Natl Acad Sci U S A

Functional interplay of Epstein-Barr virus oncoproteins in a mouse model of B cell lymphomagenesis

  • T. Sommermann
  • T. Yasuda
  • J. Ronen
  • T. Wirtz
  • T. Weber
  • U. Sack
  • R. Caeser
  • J. Zhang
  • X. Li
  • V.T. Chu
  • A. Jauch
  • K. Unger
  • D.J. Hodson
  • A. Akalin
  • K. Rajewsky
/ Am J Polit Sci

Social networks and protest participation: evidence from 130 million Twitter users

  • J.M. Larson
  • J. Nagler
  • J. Ronen
  • J.A. Tucker