Stefan L Ameres

Affiliations

IMBA-Institute of Molecular Biotechnology, Vienna Biocenter (VBC), Vienna, Austria. stefan.ameres@univie.ac.at.
Max Perutz Labs, University of Vienna, Vienna Biocenter (VBC), Vienna, Austria. stefan.ameres@univie.ac.at.

Publications (16)

Transcriptome-Wide Profiling of RNA Stability.

Methods in molecular biology (Clifton, N.J.)

Avec: Nina Fasching , Jan Petržílek , Niko Popitsch , Veronika A Herzog ,

NMD is required for timely cell fate transitions by fine-tuning gene expression and regulating translation.

Genes & development

Avec: Michelle Huth , Laura Santini , Elena Galimberti , Julia Ramesmayer , Fabian Titz-Teixeira , Robert Sehlke , Michael Oberhuemer , Sarah Stummer , Veronika Herzog , Marius Garmhausen , Merrit Romeike , Anastasia Chugunova , Friederike Leesch , Laurenz Holcik , Klara Weipoltshammer , Andreas Lackner , Christian Schoefer , Arndt von Haeseler , Christa Buecker , Andrea Pauli , Austin Smith , Andreas Beyer , Martin Leeb

Conformation of sister chromatids in the replicated human genome.

Nature

Avec: Michael Mitter , Catherina Gasser , Zsuzsanna Takacs , Christoph C H Langer , Wen Tang , Gregor Jessberger , Charlie T Beales , Eva Neuner , Jan-Michael Peters , Anton Goloborodko , Ronald Micura , Daniel W Gerlich

Hijacking of transcriptional condensates by endogenous retroviruses.

Nature genetics

Avec: Vahid Asimi , Abhishek Sampath Kumar , Henri Niskanen , Christina Riemenschneider , Sara Hetzel , Julian Naderi , Nina Fasching , Niko Popitsch , Manyu Du , Helene Kretzmer , Zachary D Smith , Raha Weigert , Maria Walther , Sainath Mamde , David Meierhofer , Lars Wittler , René Buschow , Bernd Timmermann , Ibrahim I Cisse , Alexander Meissner , Denes Hnisz

Quantification of experimentally induced nucleotide conversions in high-throughput sequencing datasets.

BMC bioinformatics

Avec: Tobias Neumann , Veronika A Herzog , Matthias Muhar , Arndt von Haeseler , Johannes Zuber , Philipp Rescheneder

Systematic refinement of gene annotations by parsing mRNA 3' end sequencing datasets.

Methods in enzymology

Avec: Pooja Bhat , Thomas R Burkard , Veronika A Herzog , Andrea Pauli ,

Proteome-scale tagging and functional screening in mammalian cells by ORFtag.

Nature methods

Avec: Filip Nemčko , Moritz Himmelsbach , Vincent Loubiere , Ramesh Yelagandula , Michaela Pagani , Nina Fasching , Julius Brennecke , Ulrich Elling , Alexander Stark ,

Structure-function analysis of microRNA 3'-end trimming by Nibbler.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Wei Xie , Ivica Sowemimo , Rippei Hayashi , Juncheng Wang , Thomas R Burkard , Julius Brennecke , Dinshaw J Patel

Time-Resolved Small RNA Sequencing Unravels the Molecular Principles of MicroRNA Homeostasis.

Molecular cell

Avec: Brian Reichholf , Veronika A Herzog , Nina Fasching , Raphael A Manzenreither , Ivica Sowemimo ,

Structural basis for acceptor RNA substrate selectivity of the 3' terminal uridylyl transferase Tailor.

Nucleic acids research

Avec: Alena Kroupova , Anastasia Ivascu , Madalena M Reimão-Pinto , Martin Jinek

Mime-seq 2.0: a method to sequence microRNAs from specific mouse cell types.

The EMBO journal

Avec: Ariane Mandlbauer , Qiong Sun , Niko Popitsch , Tanja Schwickert , Miroslava Spanova , Jingkui Wang , Meinrad Busslinger , Luisa Cochella

SLAMseq resolves the kinetics of maternal and zygotic gene expression during early zebrafish embryogenesis.

Cell reports

Avec: Pooja Bhat , Luis E Cabrera-Quio , Veronika A Herzog , Nina Fasching , Andrea Pauli ,

Determining mRNA Stability by Metabolic RNA Labeling and Chemical Nucleoside Conversion.

Methods in molecular biology (Clifton, N.J.)

Avec: Veronika A Herzog , Nina Fasching ,

Sequencing cell-type-specific transcriptomes with SLAM-ITseq.

Nature protocols

Avec: Wayo Matsushima , Veronika A Herzog , Tobias Neumann , Katharina Gapp , Johannes Zuber , Eric A Miska

Publisher Correction: Sequencing cell-type-specific transcriptomes with SLAM-ITseq.

Nature protocols

Avec: Wayo Matsushima , Veronika A Herzog , Tobias Neumann , Katharina Gapp , Johannes Zuber , Eric A Miska

Splice_sim: a nucleotide conversion-enabled RNA-seq simulation and evaluation framework.

Genome biology

Avec: Niko Popitsch , Tobias Neumann , Arndt von Haeseler ,

Réseau de co-auteurs

Veronika A Herzog 8 collaborations

Nina Fasching 6 collaborations

Niko Popitsch 4 collaborations

Tobias Neumann 4 collaborations

Arndt von Haeseler 3 collaborations

Andrea Pauli 3 collaborations

Johannes Zuber 3 collaborations

Pooja Bhat 2 collaborations

Thomas R Burkard 2 collaborations

Julius Brennecke 2 collaborations

Ivica Sowemimo 2 collaborations

Wayo Matsushima 2 collaborations

Katharina Gapp 2 collaborations

Eric A Miska 2 collaborations

Jan Petržílek 1 collaboration

Michelle Huth 1 collaboration

Laura Santini 1 collaboration

Elena Galimberti 1 collaboration

Julia Ramesmayer 1 collaboration

Fabian Titz-Teixeira 1 collaboration

Robert Sehlke 1 collaboration

Michael Oberhuemer 1 collaboration

Sarah Stummer 1 collaboration

Veronika Herzog 1 collaboration

Marius Garmhausen 1 collaboration

Merrit Romeike 1 collaboration

Anastasia Chugunova 1 collaboration

Friederike Leesch 1 collaboration

Laurenz Holcik 1 collaboration

Klara Weipoltshammer 1 collaboration

Andreas Lackner 1 collaboration

Christian Schoefer 1 collaboration

Christa Buecker 1 collaboration

Austin Smith 1 collaboration

Andreas Beyer 1 collaboration

Martin Leeb 1 collaboration

Michael Mitter 1 collaboration

Catherina Gasser 1 collaboration

Zsuzsanna Takacs 1 collaboration

Christoph C H Langer 1 collaboration

Wen Tang 1 collaboration

Gregor Jessberger 1 collaboration

Charlie T Beales 1 collaboration

Eva Neuner 1 collaboration

Jan-Michael Peters 1 collaboration

Anton Goloborodko 1 collaboration

Ronald Micura 1 collaboration

Daniel W Gerlich 1 collaboration

Vahid Asimi 1 collaboration

Abhishek Sampath Kumar 1 collaboration

Henri Niskanen 1 collaboration

Christina Riemenschneider 1 collaboration

Sara Hetzel 1 collaboration

Julian Naderi 1 collaboration

Manyu Du 1 collaboration

Helene Kretzmer 1 collaboration

Zachary D Smith 1 collaboration

Raha Weigert 1 collaboration

Maria Walther 1 collaboration

Sainath Mamde 1 collaboration

David Meierhofer 1 collaboration

Lars Wittler 1 collaboration

René Buschow 1 collaboration

Bernd Timmermann 1 collaboration

Ibrahim I Cisse 1 collaboration

Alexander Meissner 1 collaboration

Denes Hnisz 1 collaboration

Matthias Muhar 1 collaboration

Philipp Rescheneder 1 collaboration

Filip Nemčko 1 collaboration

Moritz Himmelsbach 1 collaboration

Vincent Loubiere 1 collaboration

Ramesh Yelagandula 1 collaboration

Michaela Pagani 1 collaboration

Ulrich Elling 1 collaboration

Alexander Stark 1 collaboration

Wei Xie 1 collaboration

Rippei Hayashi 1 collaboration

Juncheng Wang 1 collaboration

Dinshaw J Patel 1 collaboration

Brian Reichholf 1 collaboration

Raphael A Manzenreither 1 collaboration

Alena Kroupova 1 collaboration

Anastasia Ivascu 1 collaboration

Madalena M Reimão-Pinto 1 collaboration

Martin Jinek 1 collaboration

Ariane Mandlbauer 1 collaboration

Qiong Sun 1 collaboration

Tanja Schwickert 1 collaboration

Miroslava Spanova 1 collaboration

Jingkui Wang 1 collaboration

Meinrad Busslinger 1 collaboration

Luisa Cochella 1 collaboration

Luis E Cabrera-Quio 1 collaboration