Peer Bork

According to our database1, Peer Bork authored at least 115 papers between 1993 and 2019.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

Legend:

Book 
In proceedings 
Article 
PhD thesis 
Other 

Links

Homepages:

On csauthors.net:

Bibliography

2019
STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets.
Nucleic Acids Research, 2019

InterPro in 2019: improving coverage, classification and access to protein sequence annotations.
Nucleic Acids Research, 2019

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses.
Nucleic Acids Research, 2019

2018
20 years of the SMART protein domain annotation resource.
Nucleic Acids Research, 2018

MVP: a microbe-phage interaction database.
Nucleic Acids Research, 2018

iPath3.0: interactive pathways explorer v3.
Nucleic Acids Research, 2018

2017
Systematic identification of phosphorylation-mediated protein interaction switches.
PLoS Computational Biology, 2017

The STRING database in 2017: quality-controlled protein-protein association networks, made broadly accessible.
Nucleic Acids Research, 2017

proGenomes: a resource for consistent functional and taxonomic annotations of prokaryotic genomes.
Nucleic Acids Research, 2017

InterPro in 2017 - beyond protein family and domain annotations.
Nucleic Acids Research, 2017

OGEE v2: an update of the online gene essentiality database with special focus on differentially essential genes in human cancer cell lines.
Nucleic Acids Research, 2017

RTK: efficient rarefaction analysis of large datasets.
Bioinformatics, 2017

2016
STITCH 5: augmenting protein-chemical interaction networks with tissue and affinity data.
Nucleic Acids Research, 2016

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees.
Nucleic Acids Research, 2016

The SIDER database of drugs and side effects.
Nucleic Acids Research, 2016

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences.
Nucleic Acids Research, 2016

MOCAT2: a metagenomic assembly, annotation and profiling framework.
Bioinformatics, 2016

CART - a chemical annotation retrieval toolkit.
Bioinformatics, 2016

2015
Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota.
Nature, 2015

STRING v10: protein-protein interaction networks, integrated over the tree of life.
Nucleic Acids Research, 2015

The InterPro protein families database: the classification resource after 15 years.
Nucleic Acids Research, 2015

PTMcode v2: a resource for functional associations of post-translational modifications within and between proteins.
Nucleic Acids Research, 2015

SMART: recent updates, new developments and status in 2015.
Nucleic Acids Research, 2015

2014
Comments on "Human Dominant Disease Genes Are Enriched in Paralogs Originating from Whole Genome Duplication".
PLoS Computational Biology, 2014

Addendum: Enterotypes of the human gut microbiome.
Nature, 2014

eggNOG v4.0: nested orthology inference across 3686 organisms.
Nucleic Acids Research, 2014

STITCH 4: integration of protein-chemical interactions with user data.
Nucleic Acids Research, 2014

2013
Human Monogenic Disease Genes Have Frequently Functionally Redundant Paralogs.
PLoS Computational Biology, 2013

PTMcode: a database of known and predicted functional associations between post-translational modifications in proteins.
Nucleic Acids Research, 2013

STRING v9.1: protein-protein interaction networks, with increased coverage and integration.
Nucleic Acids Research, 2013

DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data.
Bioinformatics, 2013

2012
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges.
Nucleic Acids Research, 2012

SMART 7: recent updates to the protein domain annotation resource.
Nucleic Acids Research, 2012

STITCH 3: zooming in on protein-chemical interactions.
Nucleic Acids Research, 2012

InterPro in 2011: new developments in the family and domain prediction database.
Nucleic Acids Research, 2012

OGEE: an online gene essentiality database.
Nucleic Acids Research, 2012

The Tenth Asia Pacific Bioinformatics Conference (APBC 2012).
BMC Genomics, 2012

2011
Prediction of Drug Combinations by Integrating Molecular and Pharmacological Data.
PLoS Computational Biology, 2011

Identifying Single Copy Orthologs in Metazoa.
PLoS Computational Biology, 2011

iPath2.0: interactive pathway explorer.
Nucleic Acids Research, 2011

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored.
Nucleic Acids Research, 2011

Interactive Tree Of Life v2: online annotation and display of phylogenetic trees made easy.
Nucleic Acids Research, 2011

2010
Drug-Induced Regulation of Target Expression.
PLoS Computational Biology, 2010

SelTarbase, a database of human mononucleotide-microsatellite mutations and their potential impact to tumorigenesis and immunology.
Nucleic Acids Research, 2010

eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations.
Nucleic Acids Research, 2010

STITCH 2: an interaction network database for small molecules and proteins.
Nucleic Acids Research, 2010

AQUA: automated quality improvement for multiple sequence alignments.
Bioinformatics, 2010

SmashCell: a software framework for the analysis of single-cell amplified genome sequences.
Bioinformatics, 2010

SmashCommunity: a metagenomic annotation and analysis tool.
Bioinformatics, 2010

2009
SMART 6: recent updates and new developments.
Nucleic Acids Research, 2009

STRING 8 - a global view on proteins and their functional interactions in 630 organisms.
Nucleic Acids Research, 2009

InterPro: the integrative protein signature database.
Nucleic Acids Research, 2009

2008
KEGG Atlas mapping for global analysis of metabolic pathways.
Nucleic Acids Research, 2008

NetworKIN: a resource for exploring cellular phosphorylation networks.
Nucleic Acids Research, 2008

STITCH: interaction networks of chemicals and proteins.
Nucleic Acids Research, 2008

eggNOG: automated construction and annotation of orthologous groups of genes.
Nucleic Acids Research, 2008

4DXpress: a database for cross-species expression pattern comparisons.
Nucleic Acids Research, 2008

SuperTarget and Matador: resources for exploring drug-target relationships.
Nucleic Acids Research, 2008

Sircah: a tool for the detection and visualization of alternative transcripts.
Bioinformatics, 2008

Comparing and Analysing Gene Expression Patterns Across Animal Species Using 4DXpress.
Proceedings of the 6th Asia-Pacific Bioinformatics Conference, 2008

2007
Update of the G2D tool for prioritization of gene candidates to inherited diseases.
Nucleic Acids Research, 2007

New developments in the InterPro database.
Nucleic Acids Research, 2007

STRING 7 - recent developments in the integration and prediction of protein interactions.
Nucleic Acids Research, 2007

Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation.
Bioinformatics, 2007

2006
Identification and Analysis of Genes and Pseudogenes within Duplicated Regions in the Human and Mouse Genomes.
PLoS Computational Biology, 2006

PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments.
Nucleic Acids Research, 2006

SMART 5: domains in the context of genomes and networks.
Nucleic Acids Research, 2006

LSAT: learning about alternative transcripts in MEDLINE.
Bioinformatics, 2006

Extraction of regulatory gene/protein networks from Medline.
Bioinformatics, 2006

2005
Extraction of Transcript Diversity from Scientific Literature.
PLoS Computational Biology, 2005

InterPro, progress and status in 2005.
Nucleic Acids Research, 2005

STRING: known and predicted protein-protein associations, integrated and transferred across organisms.
Nucleic Acids Research, 2005

DCD - a novel plant specific domain in proteins involved in development and programmed cell death.
BMC Bioinformatics, 2005

Comparison of computational methods for the identification of cell cycle-regulated genes.
Bioinformatics, 2005

Medusa: a simple tool for interaction graph analysis.
Bioinformatics, 2005

The WHy domain mediates the response to desiccation in plants and bacteria.
Bioinformatics, 2005

2004
SMART 4.0: towards genomic data integration.
Nucleic Acids Research, 2004

ArrayProspector: a web resource of functional associations inferred from microarray expression data.
Nucleic Acids Research, 2004

BLAST2GENE: a comprehensive conversion of BLAST output into independent genes and gene fragments.
Bioinformatics, 2004

Gene annotation from scientific literature using mappings between keyword systems.
Bioinformatics, 2004

The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources.
Bioinformatics, 2004

Extracting Regulatory Gene Expression Networks From Pubmed.
Proceedings of the 42nd Annual Meeting of the Association for Computational Linguistics, 2004

2003
ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins.
Nucleic Acids Research, 2003

Update on XplorMed: a web server for exploring scientific literature.
Nucleic Acids Research, 2003

The InterPro Database, 2003 brings increased coverage and new features.
Nucleic Acids Research, 2003

STRING: a database of predicted functional associations between proteins.
Nucleic Acids Research, 2003

Information extraction from full text scientific articles: Where are the keywords?
BMC Bioinformatics, 2003

The PAM domain, a multi-protein complex-associated module with an all-alpha-helix fold.
BMC Bioinformatics, 2003

A comprehensive set of protein complexes in yeast: mining large scale protein-protein interaction screens.
Bioinformatics, 2003

2002
Recent improvements to the SMART domain-based sequence annotation resource.
Nucleic Acids Research, 2002

HGVbase: a human sequence variation database emphasizing data quality and a broad spectrum of data sources.
Nucleic Acids Research, 2002

A Versatile Structural Domain Analysis Server Using Profile Weight Matrices.
Journal of Chemical Information and Computer Sciences, 2002

InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites
Briefings in Bioinformatics, 2002

Comparative analysis of protein interaction networks.
Proceedings of the European Conference on Computational Biology (ECCB 2002), 2002

2000
SMART: a web-based tool for the study of genetically mobile domains.
Nucleic Acids Research, 2000

HGBASE: a database of SNPs and other variations in and around human genes.
Nucleic Acids Research, 2000

NAIL-Network Analysis Interface for Linking HMMER results.
Bioinformatics, 2000

1999
SMART: identification and annotation of domains from signalling and extracellular protein sequences.
Nucleic Acids Research, 1999

Associative database of protein sequences.
Bioinformatics, 1999

Evaluation of human-readable annotation in biomolecular sequence databases with biological rule libraries.
Bioinformatics, 1999

Comparing genes and genomes (abstract): from polymorphism to phylogeny.
Proceedings of the Third Annual International Conference on Research in Computational Molecular Biology, 1999

Applying Logic Programming to Derive Novel Functional Information of Genomes.
Proceedings of the Practical Aspects of Declarative Languages, 1999

1998
Towards detection of orthologues in sequence databases.
Bioinformatics, 1998

Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches.
Bioinformatics, 1998

Frame: detection of genomic sequencing errors.
Bioinformatics, 1998

Pathway alignment: Application in the comparative analysis of glycolysis.
Proceedings of the German Conference on Bioinformatics, 1998

1997
The Sequence Alerting Server - a new WEB server.
Computer Applications in the Biosciences, 1997

Towards detection of sequence orthologs.
Proceedings of the German Conference on Bioinformatics, 1997

Associative Data Base of Biomolecuiar Sequences.
Proceedings of the German Conference on Bioinformatics, 1997

Systematic genomic screening and analysis of mRNA in the 5' and 3' untranslated region.
Proceedings of the German Conference on Bioinformatics, 1997

1996
Von Genomsequenzen zu Proteinfunktionen.
it+ti - Informationstechnik und Technische Informatik, 1996

1995
The Functional Composition of Living Machines as a Design Principle for Artificial Organisms.
Proceedings of the Advances in Artificial Life, 1995

1994
GeneQuiz: A Workbench for Sequence Analysis.
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology, 1994

1993
A fast, sensitive pattern-matching approach for protein sequences.
Computer Applications in the Biosciences, 1993

Entschlüsselung von Proteinfunktionen mit Hilfe des Computers: Erkennung und Interpretation entfernter Sequenzähnlichkeiten.
Proceedings of the Informatik in den Biowissenschaften, 1993


  Loading...