1992-1998: Undergraduate studies in Biology at J.W.-Goethe-Universitaet
Frankfurt a.M. since August 1997 member of humangenetics
workgroup (Prof.Dr. Anna Starzinski-Powitz) and visitor at EMBL diploma
thesis : "Methodenentwicklung und Anwendungsbeispiele fuer Protein- und
Nukleotidsequenzanalysen" functional characterization of unknown protein
families (UPFs) web-tool developement : prediction of Intrinsic Features
Profession
1998-2001 PhD student at EMBL ``Annotation and classification of nuclear
domains'', member of Bork
Group (Biocomputing) Download of thesis and presentation
(german)
since July 2003 postdoctoral research at EMBL
Bork Group
(Biocomputing)
since July 2005 junior groupleader equivalent position at EMBL
Bork Group
(Biocomputing)
granted by the NGFN - Nationales Genomforschungsnetz / NGFN plus
M. A. Huynen, T. Doerks, F. Eisenhaber, C. Orengo, S. Sunyaev, Y. Yuan and
P. Bork. ``Homology based fold predictions for Mycoplasma genitalium
proteins'' J
Mol Biol. 1998 Jul 17; 280(3): 323-326
J. Schultz, R. R. Copley, T. Doerks, C. P. Ponting, P. Bork ``SMART: a
web-based tool for the study of genetically mobile domains.'' Nucleic
Acids Res 2000 Jan 1;28(1):231-234
Stutz F, Bachi A, Doerks T, Braun IC, Seraphin B, Wilm M, Bork P,
Izaurralde E. ``REF, an evolutionary conserved family of hnRNP-like
proteins, interacts with TAP/Mex67p and participates in mRNA nuclear
export.'' RNA
2000 Apr;6(4):638-50
Schultz J, Doerks T, Ponting CP, Copley RR, Bork P. ``More than 1,000
putative new human signalling proteins revealed by EST data mining'' Nat
Genet 2000 Jun;25(2):201-204
Doerks T, Bork P, Kamberov E, Makarova O, Muecke S, Margolis B ``L27,
a novel heterodimerization domain in receptor targeting proteins Lin-2 and
Lin-7'' Trends
Biochem Sci 2000 Jul;25(7):317-318
Suyama M, Doerks T, Braun IC, Sattler M, Izauralde E, Bork P
``Prediction of structural domains of TAP reveals details of its
interaction with p15 and nucleoporins'' EMBO
Reports 2000 Jul; vol.1 no.1 : 53-58
Dandekar T, Huynen M, Regula JT, Ueberle B, Zimmermann CU, Andrade MA,
Doerks T, Sanchez-Pulido L, Snel B, Suyama M, Yuan YP, Herrmann R, Bork P.
``Re-annotating the Mycoplasma pneumoniae genome sequence: adding value,
function and reading frames.'' Nucleic
Acids Res 2000 Sep 1;28(17):3278-3288
Doerks T, Strauss M, Brendel M, Bork P ``GRAM, a novel domain in
glucosyltransferases, myotubularins and other putative membrane-associated
proteins'' Trends
Biochem Sci 2000 Oct;25(10):483-5
Francesca D. Ciccarelli, Richard R. Copley, Tobias Doerks, Robert B.
Russell and Peer Bork ``CASH - a beta-helix domain widespread among
carbohydrate-binding proteins'' Trends
Biochem Sci 2002 Feb;27(2):59-62
Tobias Doerks*, Richard Copley*, Joerg Schultz, Chris Ponting and Peer
Bork ``Systematic identification of novel protein domain families
associated with nuclear functions'' Genome
Res 2002 Jan;12(1):47-56
Tobias Doerks, Saskia Huber, Erich Buchner and Peer Bork ``BSD, a
novel domain in transcription factors and other chromatin-associated
proteins'' Nucleic Acids Res 2002 Jan 1;30:1-3
Richard R. Copley, Tobias Doerks, Ivica Letunic and Peer Bork
``Protein Domain Analysis in the Era of Complete Genoms'' FEBS
Lett 2002 Feb 20;513(1):129-34
Eugen Kerkhoff, Jeremy C. Simpson, Cornelia B. Leberfinger, Ines M. Otto,
Tobias Doerks, Peer Bork, Ulf R. Rapp, Thomas Raabe and Rainer Pepperkok
``The Spir actin organizers are involved in vesicle transport processes''
Curr
Biol 2001 Dec 11;11(24):1963-8
Francesca D. Ciccarelli, Tobias Doerks and Peer Bork ``AMOP, a protein
module alternatively spliced in cancer cells.'' Trends
Biochem Sci 2002 Mar;27(3):113-5
Tobias Doerks, Miguel A. Andrade, Warren Lathe 3rd, Christian von Mering and Peer Bork ``Global analysis of bacterial transcription factors to predict cellular target processes'' Trends Genet. 2004 Mar;20(3):126-31
Letunic I, Copley RR, Schmidt S, Ciccarelli FD, Doerks T, Schultz J, Ponting CP, Bork P.
``SMART 4.0: towards genomic data integration.''
Nucleic Acids Res
2004 Jan 1;32(1):D142-4
Tobias Doerks, Christian von Mering and Peer Bork ``Functional clues for hypothetical proteins based on genomic context analysis in prokaryotes'' Nucleic Acids Res. 2004 Dec 01;32(21):6321-6
Jan O. Korbel*, Tobias Doerks*, Lars J. Jensen, Carolina
Perez-Iratxeta, Szymon Kaczanowski, Sean D. Hooper, Miguel A. Andrade
& Peer Bork
``Systematic association of genes to phenotypes by genome and literature mining''
PLoS Biol. 2005 May;3(5):e134. Epub 2005 Apr 5
Raimund Tenhaken*, Tobias Doerks* & Peer Bork
``DCD - a novel plant specific domain in proteins involved in development and programmed cell death''
BMC Bioinformatics 2005, 6:169 (11Jul2005)
Güell M, van Noort V, Yus E, Chen WH, Leigh-Bell J, Michalodimitrakis K, Yamada T, Arumugam M, Doerks T, Kühner S, Rode M, Suyama M, Schmidt S, Gavin AC, Bork P, Serrano L.
``Transcriptome complexity in a genome-reduced bacterium.''
Haemmerling S, Behnisch W, Doerks T, Korbel JO, Bork P, Moog U, Hentze S, Grasshoff U, Bonin M, Rieß O, Janssen JW, Jauch A, Bartram CR, Reinhardt D, Koch KA, Bandapalli OR, Kulozik AE.
``A 15q24 microdeletion in transient myeloproliferative disease (TMD) and acute megakaryoblastic leukaemia (AMKL) implicates PML and SUMO3 in the leukaemogenesis of TMD/AMKL.''
thesis and presentation
(german)
