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Scientific Publications

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/ bioRxiv

Metrics matter: why we need to stop using silhouette in single-cell benchmarking

  • P. Rautenstrauch
  • U. Ohler
/ bioRxiv

Cell-type specific prediction of RNA stability from RNA-protein interactions

  • S. Saran
  • S. Lebedeva
  • A. Hirsekorn
  • U. Ohler
/ BMC Genomics

Interpreting deep neural networks for the prediction of translation rates

  • F. Korbel
  • E. Eroshok
  • U. Ohler
/ Proc Natl Acad Sci U S A

Arabidopsis uses a molecular grounding mechanism and a biophysical circuit breaker to limit floral abscission signaling

  • I.W. Taylor
  • O.R. Patharkar
  • M. Mijar
  • C.W. Hsu
  • J. Baer
  • C.E. Niederhuth
  • U. Ohler
  • P.N. Benfey
  • J.C. Walker
/ iScience

Copy-number dosage regulates telomere maintenance and disease-associated pathways in neuroblastoma

  • M. Burkert
  • E. Blanc
  • N. Thiessen
  • C. Weber
  • J. Toedling
  • R. Monti
  • V.M. Dombrowe
  • M.S. de Biase
  • T.L. Kaufmann
  • K. Haase
  • S.M. Waszak
  • A. Eggert
  • D. Beule
  • J.H. Schulte
  • U. Ohler
  • R.F. Schwarz
/ bioRxiv

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation

  • D. Vučićević
  • C.W. Hsu
  • L.S. Lopez Zepeda
  • M. Burkert
  • A. Hirsekorn
  • I. Bilić
  • N. Kastelić
  • M. Landthaler
  • S.A. Lacadie
  • U. Ohler
/ bioRxiv

High-quality peptide evidence for annotating non-canonical open reading frames as human proteins

  • Eric W Deutsch
  • Leron W Kok
  • Jonathan M Mudge
  • J. Ruiz-Orera
  • Ivo Fierro-Monti
  • Zhi Sun
  • Jennifer G Abelin
  • M Mar Alba
  • Julie L Aspden
  • Ariel A Bazzini
  • Elspeth Bruford
  • Marie A Brunet
  • L. Calviello
  • Steven A Carr
  • Anne-Ruxandra Carvunis
  • Sonia Chothani
  • Jim Clauwaert
  • Kellie Dean
  • Pouya Faridi
  • Adam Frankish
  • N. Hubner
  • Nicholas Ingolia
  • Michele Magrane
  • Maria Jesus Martin
  • Thomas F Martinez
  • Gerben Menschaert
  • U. Ohler
  • Sandra Orchard
  • Owen Rackham
  • Xavier Roucou
  • Sarah A Slavoff
  • Eivind Valen
  • Aaron C Wacholder
  • Jonathan S. Weissman
  • Wei Wu
  • Zhi Xie
  • Jyoti Choudhary
  • Michal Bassani-Sternberg
  • Juan Antonio Vizcaino
  • Nicola Ternette
  • Robert L. Moritz
  • John Prensner
  • S. van Heesch
/ Plant J

MatK impacts differential chloroplast translation by limiting spliced tRNA-K(UUU) abundance

  • J.M. Muino
  • H. Ruwe
  • Y. Qu
  • S. Maschmann
  • W. Chen
  • R. Zoschke
  • U. Ohler
  • K. Kaufmann
  • C. Schmitz-Linneweber
/ Bioinformatics

Metadata-guided feature disentanglement for functional genomics

  • A. Rakowski
  • R. Monti
  • V. Huryn
  • M. Lemanczyk
  • U. Ohler
  • C. Lippert
/ arXiv

Insights, opportunities and challenges provided by large cell atlases

  • M. Hemberg
  • F. Marini
  • S. Ghazanfar
  • A. Al Ajami
  • N. Abassi
  • B. Anchang
  • B.A. Benayoun
  • Y. Cao
  • K. Chen
  • Y. Cuesta-Astroz
  • Z. DeBruine
  • K.A. Dendrou
  • I. De Vlaminck
  • K. Imkeller
  • I. Korsunsky
  • A.R. Lederer
  • P. Meysman
  • C. Miller
  • K. Mullan
  • U. Ohler
  • N. Patikas
  • N. Schuck
  • J.H.Y. Siu
  • T.J. Triche
  • A. Tsankov
  • S.W. van der Laan
  • M. Yajima
  • J. Yang
  • F. Zanini
  • I. Jelic