Professor of Bioinformatics
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1984: M.Sc. Biology, Majors Bioinformatics and Population Genetics, Minor Computer Science
1993: Ph.D. Bioinformatics (Cum Laude), University of Utrecht, The Netherlands. Thesis title: Local Interactions in Protein Folds: A Bioinformatic Approach
1985 - 1988: Development Programmer and Team Leader with IBM Informations Network Service Development Center (INSDC), Uithoorn, The Netherlands
1988 - 1996: Staff Researcher, Biocomputing department, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
1996 - 2002: Group leader, Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK
2002 - 2003: MRC Senior Scientist, Division of Mathematical Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK
2002 - Date: Professor of Bioinformatics, Free University, Amsterdam, The Netherlands
2002 - Date: Head of Bioinformatics Section, Faculty of Sciences, Free University, Amsterdam, The Netherlands
2003 - Date: Director of the Centre for Integrative Bioinformatics VU (IBIVU), Free University, Amsterdam, The Netherlands
2009 - Date: Director of the Netherlands Bioinformatics Centre (NBIC) Education Platform "BioWise"
2010 - Date: Scientific Director of the Netherlands Bioinformatics Centre (NBIC)
Heringa, J., and Argos P. (1993b). A method to recognize distant repeats in protein sequences. Proteins Struct. Func. Genet. 17, 391-411.
Heringa, J. (1994). The evolution and recognition of protein sequence repeats. Comp. Chem. 18, 233-243.
Heringa, J., and Taylor, W. R. (1997). Three-dimensional domain duplication, swapping and stealing. Curr. Opin. Struct. Biol. 7, 416-421.
Heringa, J. (1998) Detection of internal sequence repeats: how common are they? Curr. Opin. Struct. Biology, 8, 338-345.
Heringa J. (1999) Two strategies for sequence comparison: Profile-preprocessed and secondary structure-induced multiple alignment. Comp. Chem. 23, 341-364.
Notredame, C., Higgins D., and Heringa, J. (2000) T-Coffee: A novel method for fast and accurate multiple sequence alignment. J. Mol. Biol., 302, 205-217.
Heringa, J. (2002) Local weighting schemes for protein multiple sequence alignment. Comput. Chem., 26, 459-477.
George, R.A. and Heringa, J. (2002) SNAPDRAGON: A new method to predict protein structural domain boundaries from sequence data. J. Mol. Biol., 316, 839-851.
George R.A. and Heringa J. (2002) Protein domain identification and improved sequence similarity searching using PSI-BLAST, Proteins: Struct. Func. Gen. 48, 672-681.
Szklarczyk, R. and Heringa, J. (2004) Tracking repeats using significance and transitivity. Bioinformatics 20 Suppl. 1, i311-i317.
Lin K., Simossis V.A., Taylor W.R. and Heringa J. (2005) A Simple and Fast Secondary Structure Prediction Algorithm using Hidden Neural Networks. Bioinformatics. 21(2):152-9.
Kleinjung, J., Romein, J., Lin, K., and Heringa J. (2004) Contact-based sequence alignment. Nucl. Acids Res. 32(8), 2464- 2473.
Simossis V.A., Kleinjung, J. and Heringa J. (2005) Homology-extended sequence alignment. Nucleic Acids Res., 33(3):816-824.
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