Andreas J. Gruber

发表

Modulation of epigenetic regulators and cell fate decisions by miRNAs.

Mihaela Zavolan, M. Zavolan, Andreas J. Gruber, 2013, Epigenomics.

Uncovering novel mutational signatures by de novo extraction with SigProfilerExtractor

Erik N. Bergstrom, Samuel W. Brady, M. Stratton, 2020, bioRxiv.

ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs

Piotr J. Balwierz, E. van Nimwegen, M. Zavolan, 2014, Genome research.

Terminal exon characterization with TECtool reveals an abundance of cell-specific isoforms

M. Zavolan, A. Riba, Andreas J. Gruber, 2018, Nature Methods.

of regulatory motifs ISMARA : automated modeling of genomic signals as a democracy Material Supplemental

Piotr J. Balwierz, M. Zavolan, E. Nimwegen, 2014 .

A comprehensive analysis of 3′ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation

Ralf Schmidt, Mihaela Zavolan, Manuel Belmadani, 2015, bioRxiv.

Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data

Mihaela Zavolan, Alexander Kanitz, Andreas R. Gruber, 2015, Genome Biology.

Alternative cleavage and polyadenylation in health and disease

M. Zavolan, Andreas J. Gruber, 2019, Nature Reviews Genetics.

Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells

Sita J. Saunders, Michael T. Wolfinger, Andrea Tanzer, 2016, Scientific Reports.

Discovery of physiological and cancer-related regulators of 3′ UTR processing with KAPAC

E. van Nimwegen, M. Zavolan, Andreas J. Gruber, 2018, Genome Biology.

Discovery of physiological and cancer-related regulators of 3’ UTR processing with KAPAC

E. van Nimwegen, M. Zavolan, Andreas J. Gruber, 2017, bioRxiv.

Discovery of global regulators of 3′ untranslated region processing in cancers with KAPAC

M. Zavolan, E. Nimwegen, Andreas J. Gruber, 2017 .

Germline MBD4 deficiency causes a multi-tumor predisposition syndrome

M. Christie, D. Wedge, N. López-Bigas, 2022, American journal of human genetics.

A comprehensive analysis of 3’ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogenous ribonucleoprotein C on cleavage and polyadenylation

M. Zavolan, W. Keller, Andreas J. Gruber, 2015, bioRxiv.

Global 3′ UTR shortening has a limited effect on protein abundance in proliferating T cells

E. van Nimwegen, M. Zavolan, W. Keller, 2014, Nature Communications.

COMMENTARY Animal Models of Retrovirus-Associated Malignancies

Andreas J. Gruber, K. Cremer, 1992 .

Exploiting variability of single cells to uncover the in vivo hierarchy of miRNA targets

E. van Nimwegen, M. Zavolan, C. Beisel, 2015, bioRxiv.

3' End Sequencing Library Preparation with A-seq2

M. Zavolan, W. Keller, Andreas J. Gruber, 2017, Journal of visualized experiments : JoVE.

Ligation of Reverse 3 ' Adapters to the 5 ' End of RNA Fragments

M. Zavolan, W. Keller, Andreas J. Gruber, 2017 .

The International Virus Bioinformatics Meeting 2022

P. Lemey, E. Domingo, F. Weber, 2022, Viruses.

Whole genome sequencing of 2,023 colorectal cancers reveals mutational landscapes, new driver genes and immune interactions

D. Wedge, N. López-Bigas, L. Alexandrov, 2022, bioRxiv.

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Martin S. Taylor, Jay W. Shin, Thomas J. Ha, 2021, Nature Communications.

Whole-genome analysis of Nigerian patients with breast cancer reveals ethnic-driven somatic evolution and distinct genomic subtypes

K. White, O. Olopade, D. Wedge, 2020, Nature Communications.

TFAP2A is a component of the ZEB1/2 network that regulates TGFB1-induced epithelial to mesenchymal transition

M. Zavolan, G. Christofori, Andreas J. Gruber, 2017, Biology Direct.

A different perspective on alternative cleavage and polyadenylation

M. Zavolan, Jianzhi Zhang, Andreas J. Gruber, 2019, Nature Reviews Genetics.

Discovery of physiological and cancer-related regulators of 3′ UTR processing with KAPAC

E. van Nimwegen, M. Zavolan, Andreas J. Gruber, 2018, Genome Biology.

Exploiting the multiplexing capabilities of tandem mass tags for high-throughput estimation of cellular protein abundances by mass spectrometry.

S. Marguerat, A. Schmidt, Andreas J. Gruber, 2015, Methods.

Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways

Piotr J. Balwierz, E. van Nimwegen, M. Zavolan, 2014, Nucleic acids research.

Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis

V. Aguiar-Pulido, B. Pickett, Rita Rebollo, 2021, Communications Biology.

Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis

V. Aguiar-Pulido, B. Pickett, M. Ferrarini, 2020, Communications Biology.

Pegylated IFN-α regulates hepatic gene expression through transient Jak/STAT activation.

Julia E. Vogt, E. van Nimwegen, Volker Roth, 2014, The Journal of clinical investigation.

Single‐cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA induction

Mihaela Zavolan, Christian Beisel, Souvik Ghosh, 2018, Molecular systems biology.

PolyASite 2.0: a consolidated atlas of polyadenylation sites from 3′ end sequencing

M. Zavolan, Andreas J. Gruber, A. Kanitz, 2019, Nucleic Acids Res..

Local stoichiometries determined by counting individual molecules

Thomas Schmidt, Gerhard J. Schütz, G. Schütz, 1996 .

Terminal exon characterization with TECtool reveals an abundance of cell-specific isoforms

M. Zavolan, A. Riba, Andreas J. Gruber, 2018, Nature Methods.

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Thomas J. Ha, L. K. Nielsen, Kelly J. Hitchens, 2021 .

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Thomas J. Ha, L. K. Nielsen, Kelly J. Hitchens, 2021 .

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Thomas J. Ha, L. K. Nielsen, Kelly J. Hitchens, 2022 .

Discovery of physiological and cancer-related regulators of 3′ UTR processing with KAPAC

E. van Nimwegen, M. Zavolan, Andreas J. Gruber, 2017, Genome Biology.

Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data

M. Zavolan, Andreas J. Gruber, A. Gruber, 2015, Genome Biology.

Frequent co-regulation of splicing and polyadenylation by RNA-binding proteins inferred with MAPP

E. van Nimwegen, M. Zavolan, Andreas J. Gruber, 2022, bioRxiv.

Investigating the Human Host—ssRNA Virus Interaction Landscape Using the SMEAGOL Toolbox

M. Ferrarini, Andreas J. Gruber, Avantika Lal, 2021, bioRxiv.

TFAP2A is a component of the ZEB1/2 network that regulates TGFB1-induced epithelial to mesenchymal transition

M. Zavolan, G. Christofori, Andreas J. Gruber, 2017, Biology Direct.