Thomas Manke

发表

Statistical Modeling of Transcription Factor Binding Affinities Predicts Regulatory Interactions

Martin Vingron, Thomas Manke, Helge G. Roider, 2008, PLoS Comput. Biol..

RELACS: a novel in-nuclei barcoding strategy for high-throughput ChIP-seq

Thomas Manke, Laura Arrigoni, Nadia Kress, 2018 .

pyGenomeTracks: reproducible plots for multivariate genomic datasets

Fidel Ramírez, Rolf Backofen, Thomas Manke, 2020, Bioinform..

RELACS nuclei barcoding enables high-throughput ChIP-seq

Fidel Ramírez, Thomas Manke, Laura Arrigoni, 2018, Communications Biology.

normR: Regime enrichment calling for ChIP-seq data

Ho-Ryun Chung, Na Li, Thomas Manke, 2016, bioRxiv.

Parkour LIMS: high‐quality sample preparation in next generation sequencing

Thomas Manke, Laura Arrigoni, Devon Patrick Ryan, 2018, Bioinform..

snakePipes: facilitating flexible, scalable and integrative epigenomic analysis

Thomas Manke, Vivek Bhardwaj, Katarzyna Sikora, 2019, Bioinform..

deepTools: a flexible platform for exploring deep-sequencing data

Fidel Ramírez, Sarah Diehl, Thomas Manke, 2014, Nucleic Acids Res..

Prioritization of gene regulatory interactions from large-scale modules in yeast

Martin Vingron, Thomas Manke, Ho-Joon Lee, 2008, BMC Bioinformatics.

snakePipes enable flexible, scalable and integrative epigenomic analysis

Thomas Manke, Vivek Bhardwaj, Leily Rabbani, 2018, bioRxiv.

Predicting transcription factor affinities to DNA from a biophysical model

Martin Vingron, Thomas Manke, Helge G. Roider, 2007, Bioinform..

Lethality and entropy of protein interaction networks.

Martin Vingron, Thomas Manke, Lloyd Demetrius, 2005, Genome informatics. International Conference on Genome Informatics.

Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization

Fidel Ramírez, Rolf Backofen, Thomas Manke, 2018, Nucleic Acids Res..

Parkour LIMS: facilitating high-quality sample preparation in next generation sequencing

Thomas Manke, Laura Arrigoni, Ulrike Boenisch, 2018 .

Detecting Functional Modules of Transcription Factor Binding Sites in the Human Genome

Martin Vingron, Christoph Dieterich, Thomas Manke, 2004, Regulatory Genomics.

ChroMoS: an integrated web tool for SNP classification, prioritization and functional interpretation

Thomas Manke, Maxim Barenboim, M. Barenboim, 2013, Bioinform..

deepTools2: a next generation web server for deep-sequencing data analysis

Fidel Ramírez, Thomas Manke, Vivek Bhardwaj, 2016, Nucleic Acids Res..

PASTAA: identifying transcription factors associated with sets of co-regulated genes

Martin Vingron, Thomas Manke, Helge G. Roider, 2008, Bioinform..

Light hadron spectroscopy with two flavors of dynamical quarks on the lattice

Akira Ukawa, Thomas Manke, Sinya Aoki, 2002 .

Epigenomic Profiling of Human CD4+ T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development.

Ho-Ryun Chung, Thomas Lengauer, Florian Schmidt, 2016, Immunity.

MicroRNAs Differentially Expressed in Postnatal Aortic Development Downregulate Elastin via 3′ UTR and Coding-Sequence Binding Sites

Thomas Manke, Gao Guo, Marten Jäger, 2011, PloS one.

Integrating sequence, evolution and functional genomics in regulatory genomics

Martin Vingron, Esko Ukkonen, Thomas Manke, 2009, Genome Biology.

A genome-wide association study identifies GLT6D1 as a susceptibility locus for periodontitis.

Thomas Manke, Philip Rosenstiel, Stefan Schreiber, 2010, Human molecular genetics.

Community-driven data analysis training for biology

Anthony Bretaudeau, Fidel Ramírez, Rolf Backofen, 2017, bioRxiv.

Nuclear Architecture Organized by Rif1 Underpins the Replication-Timing Program

Wolfgang Huber, Thomas Manke, Remco Loos, 2016, Molecular cell.

Community-driven data analysis training for biology

Anthony Bretaudeau, Fidel Ramírez, Rolf Backofen, 2017, bioRxiv.

Proteomic Shifts in Embryonic Stem Cells with Gene Dose Modifications Suggest the Presence of Balancer Proteins in Protein Regulatory Networks

Joachim Klose, Thomas Manke, Lei Mao, 2007, PloS one.

MOF-associated complexes ensure stem cell identity and Xist repression

Fidel Ramírez, Rolf Backofen, Thomas Manke, 2014, eLife.

Epigenetic dynamics of monocyte-to-macrophage differentiation

Stefan Wallner, Thomas Lengauer, Sven Rahmann, 2016, Epigenetics & Chromatin.

High-resolution TADs reveal DNA sequences underlying genome organization in flies

Fidel Ramírez, Jose M. Villaveces, Thomas Manke, 2017 .

Correlating protein-DNA and protein-protein interaction networks.

Martin Vingron, Thomas Manke, Ricardo Bringas, 2003, Journal of molecular biology.

Robustness and network evolution--an entropic principle

Thomas Manke, Lloyd Demetrius, L. Demetrius, 2005 .

An entropic characterization of protein interaction networks and cellular robustness

Martin Vingron, Thomas Manke, Lloyd Demetrius, 2006, Journal of The Royal Society Interface.

CRUP: a comprehensive framework to predict condition-specific regulatory units

Martin Vingron, Ho-Ryun Chung, Thomas Manke, 2018, Genome Biology.

High-Affinity Sites Form an Interaction Network to Facilitate Spreading of the MSL Complex across the X Chromosome in Drosophila.

Ho-Ryun Chung, Fidel Ramírez, Thomas Manke, 2015, Molecular cell.

Galaxy HiCExplorer 3: a web server for reproducible Hi-C, capture Hi-C and single-cell Hi-C data analysis, quality control and visualization

Rolf Backofen, Thomas Manke, Leily Rabbani, 2020, Nucleic Acids Res..