Publications by authors named "Gregor Rot"

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The Arabidopsis U1 snRNP regulates mRNA 3'-end processing.
Anchilie F Mangilet, Joachim Weber, Sandra Schüler, Manon Adler, Eneza Yoeli Mjema, Gregor Rot

Nat Plants· October 2024

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: an integrative toolkit for splicing analysis from short-read RNA-seq.
Gregor Rot, Arne Wehling, Roland Schmucki, Nikolaos Berntenis, Jitao David Zhang

Bioinform Adv· August 2024

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Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data.
Sam Bryce-Smith, Dominik Burri, Matthew R Gazzara, Christina J Herrmann, Weronika Danecka, Gregor Rot

RNA· December 2023

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Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data.
Sam Bryce-Smith, Dominik Burri, Matthew R Gazzara, Christina J Herrmann, Weronika Danecka, Gregor Rot

bioRxiv· June 2023

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Analysis of RNA Polyadenylation in Healthy and Osteoarthritic Human Articular Cartilage.
Phaedra Winstanley-Zarach, Gregor Rot, Shweta Kuba, Aibek Smagul, Mandy J Peffers

Int J Mol Sci· April 2023

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The X-linked splicing regulator MBNL3 has been co-opted to restrict placental growth in eutherians.
Thomas Spruce, Mireya Plass, André Gohr, Debashish Ray, María Martínez de Lagrán, Gregor Rot

PLoS Biol· April 2022

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Correction to: A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells.
Yu Bai, Emmanuel Caussinus, Stefano Leo, Fritz Bosshardt, Faina Myachina, Gregor Rot

BMC Genomics· March 2022

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A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells.
Yu Bai, Emmanuel Caussinus, Stefano Leo, Fritz Bosshardt, Faina Myachina, Gregor Rot

BMC Genomics· October 2021

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Cross-Regulation between TDP-43 and Paraspeckles Promotes Pluripotency-Differentiation Transition.
Miha Modic, Markus Grosch, Gregor Rot, Silvia Schirge, Tjasa Lepko

Mol Cell· June 2019

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High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43.
Gregor Rot, Zhen Wang, Ina Huppertz, Miha Modic, Tina Lenče

Cell Rep· May 2017

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RNAmotifs: prediction of multivalent RNA motifs that control alternative splicing.
Matteo Cereda, Uberto Pozzoli, Gregor Rot, Peter Juvan, Anthony Schweitzer

Genome Biol· January 2014

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Transcriptional profiling of Dictyostelium with RNA sequencing.
Edward Roshan Miranda, Gregor Rot, Marko Toplak, Balaji Santhanam, Tomaz Curk

Methods Mol Biol· August 2013

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CELF4 regulates translation and local abundance of a vast set of mRNAs, including genes associated with regulation of synaptic function.
Jacy L Wagnon, Michael Briese, Wenzhi Sun, Connie L Mahaffey, Tomaž Curk, Gregor Rot

PLoS Genet· May 2013

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Bacterial discrimination by dictyostelid amoebae reveals the complexity of ancient interspecies interactions.
Waleed Nasser, Balaji Santhanam, Edward Roshan Miranda, Anup Parikh, Kavina Juneja, Gregor Rot

Curr Biol· May 2013

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Widespread binding of FUS along nascent RNA regulates alternative splicing in the brain.
Boris Rogelj, Laura E Easton, Gireesh K Bogu, Lawrence W Stanton, Gregor Rot

Sci Rep· March 2013

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Analysis of alternative splicing associated with aging and neurodegeneration in the human brain.
James R Tollervey, Zhen Wang, Tibor Hortobágyi, Joshua T Witten, Kathi Zarnack, Gregor Rot

Genome Res· October 2011

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SNPsyn: detection and exploration of SNP-SNP interactions.
Tomaz Curk, Gregor Rot, Blaz Zupan

Nucleic Acids Res· July 2011

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Characterizing the RNA targets and position-dependent splicing regulation by TDP-43.
James R Tollervey, Tomaž Curk, Boris Rogelj, Michael Briese, Matteo Cereda, Gregor Rot

Nat Neurosci· April 2011

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iCLIP--transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution.
Julian Konig, Kathi Zarnack, Gregor Rot, Tomaz Curk, Melis Kayikci

J Vis Exp· April 2011

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iCLIP predicts the dual splicing effects of TIA-RNA interactions.
Zhen Wang, Melis Kayikci, Michael Briese, Kathi Zarnack, Nicholas M Luscombe, Gregor Rot

PLoS Biol· October 2010

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Conserved developmental transcriptomes in evolutionarily divergent species.
Anup Parikh, Edward Roshan Miranda, Mariko Katoh-Kurasawa, Danny Fuller, Gregor Rot

Genome Biol· September 2010

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iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution.
Julian König, Kathi Zarnack, Gregor Rot, Tomaz Curk, Melis Kayikci

Nat Struct Mol Biol· July 2010

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dictyExpress: a Dictyostelium discoideum gene expression database with an explorative data analysis web-based interface.
Gregor Rot, Anup Parikh, Tomaz Curk, Adam Kuspa, Gad Shaulsky

BMC Bioinformatics· August 2009

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