Tobias Doerks

Tobias Doerks

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Tobias Doerks

Tobias Doerks

Publications by authors named "Tobias Doerks"

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39Publications

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Lipid Cooperativity as a General Membrane-Recruitment Principle for PH Domains.

Cell Rep 2015 Sep 20;12(9):1519-30. Epub 2015 Aug 20.

Structural and Computational Biology Unit, European Molecular Biology Laboratory (EMBL), Meyerhofstrasse 1, 69117 Heidelberg, Germany; Molecular Medicine Partnership Unit, EMBL, Meyerhofstrasse 1, 69117 Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2015.07.054DOI Listing
September 2015

A phylogeny-based benchmarking test for orthology inference reveals the limitations of function-based validation.

PLoS One 2014 4;9(11):e111122. Epub 2014 Nov 4.

Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany; Max-Delbruck-Centre for Molecular Medicine, Berlin, Germany.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0111122PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4219706PMC
July 2015

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

Nucleic Acids Res 2015 Jan 9;43(Database issue):D257-60. Epub 2014 Oct 9.

EMBL, Meyerhofstrasse 1, 69117 Heidelberg, Germany

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http://dx.doi.org/10.1093/nar/gku949DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384020PMC
January 2015

SMART 7: recent updates to the protein domain annotation resource.

Nucleic Acids Res 2012 Jan 3;40(Database issue):D302-5. Epub 2011 Nov 3.

EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkr931DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245027PMC
January 2012

Identifying single copy orthologs in Metazoa.

PLoS Comput Biol 2011 Dec 1;7(12):e1002269. Epub 2011 Dec 1.

Teagasc, Animal & Grassland Research and Innovation Centre, Grange, Dunsany, County Meath, Ireland.

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http://dx.doi.org/10.1371/journal.pcbi.1002269DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3228760PMC
December 2011

Orthology prediction methods: a quality assessment using curated protein families.

Bioessays 2011 Oct 19;33(10):769-80. Epub 2011 Aug 19.

Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.

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http://dx.doi.org/10.1002/bies.201100062DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3193375PMC
October 2011

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

Nucleic Acids Res 2011 Jan 2;39(Database issue):D561-8. Epub 2010 Nov 2.

Faculty of Health Sciences, Novo Nordisk Foundation Centre for Protein Research, University of Copenhagen, Denmark.

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http://dx.doi.org/10.1093/nar/gkq973DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013807PMC
January 2011

A nitrile hydratase in the eukaryote Monosiga brevicollis.

PLoS One 2008 19;3(12):e3976. Epub 2008 Dec 19.

European Molecular Biology Laboratory, Heidelberg, Germany.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0003976PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2603476PMC
February 2009

Discovering functional novelty in metagenomes: examples from light-mediated processes.

J Bacteriol 2009 Jan 10;191(1):32-41. Epub 2008 Oct 10.

Structural and Computational Biology Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1128/JB.01084-08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2612456PMC
January 2009

SMART 6: recent updates and new developments.

Nucleic Acids Res 2009 Jan 31;37(Database issue):D229-32. Epub 2008 Oct 31.

EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany.

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https://nar.oxfordjournals.org/content/37/suppl_1/D229.full-
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http://nar.oxfordjournals.org/lookup/doi/10.1093/nar/gkn808
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http://dx.doi.org/10.1093/nar/gkn808DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686533PMC
January 2009

Do human lipoxygenases have a PDZ regulatory domain?

Curr Mol Med 2008 Dec;8(8):768-73

Urology Research Center, Department of Urology, Health Science Campus, University of Toledo, 3000 Arlington Ave., Toledo, OH 43614, USA.

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http://dx.doi.org/10.2174/156652408786733757DOI Listing
December 2008

eggNOG: automated construction and annotation of orthologous groups of genes.

Nucleic Acids Res 2008 Jan 16;36(Database issue):D250-4. Epub 2007 Oct 16.

European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1093/nar/gkm796DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238944PMC
January 2008

STRING 7--recent developments in the integration and prediction of protein interactions.

Nucleic Acids Res 2007 Jan 10;35(Database issue):D358-62. Epub 2006 Nov 10.

European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1093/nar/gkl825DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1669762PMC
January 2007

Computational characterization of multiple Gag-like human proteins.

Trends Genet 2006 Nov 18;22(11):585-9. Epub 2006 Sep 18.

EMBL, Meyerhofstrasse 1, 69117 Heidelberg, Germany.

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http://dx.doi.org/10.1016/j.tig.2006.09.006DOI Listing
November 2006

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

BMC Bioinformatics 2005 Jul 11;6:169. Epub 2005 Jul 11.

Plant Molecular Biology, University of Frankfurt, Marie-Curie-Str, 9, 60439 Frankfurt, Germany.

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http://dx.doi.org/10.1186/1471-2105-6-169DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1182354PMC
July 2005

Functional clues for hypothetical proteins based on genomic context analysis in prokaryotes.

Nucleic Acids Res 2004 1;32(21):6321-6. Epub 2004 Dec 1.

EMBL, 69012 Heidelberg, Meyerhofstrasse 1 and Max-Delbrueck-Centrum, Robert-Roessle-Strasse 10, D-13092 Berlin, Germany.

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http://dx.doi.org/10.1093/nar/gkh973DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC535681PMC
December 2004

Global analysis of bacterial transcription factors to predict cellular target processes.

Trends Genet 2004 Mar;20(3):126-31

EMBL, 69117 Heidelberg, Meyerhofstr 1, Germany.

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http://dx.doi.org/10.1016/j.tig.2004.01.006DOI Listing
March 2004

SMART 4.0: towards genomic data integration.

Nucleic Acids Res 2004 Jan;32(Database issue):D142-4

EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany.

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http://dx.doi.org/10.1093/nar/gkh088DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC308822PMC
January 2004

BSD: a novel domain in transcription factors and synapse-associated proteins.

Trends Biochem Sci 2002 Apr;27(4):168-70

EMBL, 69012 Heidelberg, Meyerhofstr. 1, and Max-Delbrueck-Centrum, Berlin, Germany.

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http://dx.doi.org/10.1016/s0968-0004(01)02042-4DOI Listing
April 2002

CASH--a beta-helix domain widespread among carbohydrate-binding proteins.

Trends Biochem Sci 2002 Feb;27(2):59-62

Max-Delbrueck-Centrum, PO Box 740238, D-13092 Berlin, Germany.

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http://dx.doi.org/10.1016/s0968-0004(01)02046-1DOI Listing
February 2002

Protein domain analysis in the era of complete genomes.

FEBS Lett 2002 Feb;513(1):129-34

EMBL, Meyerhofstrasse 1, Heidelberg, Germany.

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http://dx.doi.org/10.1016/s0014-5793(01)03289-6DOI Listing
February 2002

Systematic identification of novel protein domain families associated with nuclear functions.

Genome Res 2002 Jan;12(1):47-56

European Molecular Biology Laboratory, 69114 Heidelberg, Germany.

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http://dx.doi.org/10.1101/gr.203201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC155265PMC
January 2002