| Robert Hoffmann, PhD
Chris Sander's Lab
Computational Biology Center, cBIO.
Memorial Sloan-Kettering Cancer Center, MSKCC.
1275 York Avenue. New York, NY 10021.
phone +1 646-735-8081, fax +1646-735-0021
Contact | | qualifications | | 2001 | | 2005 | | PhD, National Center ofBiotechnology (CNB), Madrid / Institute for Theoretical Chemistry,University of Vienna. | | | | | | Marie Curie Fellowship (4/2004), EuropeanBioinformatics Institute, Cambridge, United Kingdom. | | 1998 | - | 1999 | | MSc, Institute of MolecularPathology, Boehringer Ingelheim, Austria / Institute for TheoreticalChemistry, University of Vienna. | | 1997 | - | 1998 | | Performancescholarship, University of Vienna. | | 1994 | - | 1998 | | Genetics, University ofVienna. | | 1991 | - | 1992 | | Student exchangeprogram, Canada. | | 1985 | - | 1993 | | Grammar school, Vienna. |
| publications | | Implementing the iHOP concept for navigation ofbiomedical literature. Hoffmann, R., Valencia, A. Bioinformatics21(suppl. 2), ii252-ii258 (2005). , PDF, Suppl. Mat., Online Version | | Text mining for metabolic pathways, signalingcascades, and protein networks. Hoffmann, R., Krallinger, M., Andres,E, Tamames, J., Blaschke, C., Valencia, A. Sci STKE 283, 21(2005). , PDF | | HomoMINT: an inferred human network based onorthology mapping of protein interactions discovered in modelorganisms. Perisco, M., Ceol, A., Gavrila, C., Hoffmann, R., Florio,A., Cesareni, G. BMC Bioinformatics 6 Suppl 4:S21 (2005). , PDF | | HCAD, closing the gap between breakpoints andgenes. Hoffmann, R., Dopazo, J., Cigudosa, J.C., Valencia, A. NucleicAcids Research 33, D511-3 (2005). , PDF | | A gene network for navigating the literature.Hoffmann, R., Valencia, A. Nature Genetics 36, 664 (2004). , PDF | | Protein interaction: same network, differenthubs. Hoffmann, R., Valencia, A. Trends Genet. 19(12),681-683. (2003). , PDF | | Life cycles of successful genes. Hoffmann, R.,Valencia, A. Trends Genet. 19(2), 79-81. (2003). , PDF | | TIS7 interacts with the mammalian SIN3 histonedeacetylase complex in epithelial cells. Vietor, I., Vadivelu, S. K.,Wick, N., Hoffmann, R., Cotten, M. et al. Embo J 21, 4621-31(2002). , PDF | | Extracting information automatically from thebiological literature. Blaschke, C., Hoffmann, R., Oliveros, J.C.and Valencia, A. Comp. Funct. Genom. (2), 310-313. (2001). PDF | | The importance of short structural motifs inprotein structure analysis; Diploma thesis at the Institute forTheoretical Chemistry and Molecular Structural Biology, University ofVienna (1999). | | | | tutorials | | Gene Expression Levels as Traits in GeneticLinkage Analysis. Moeller, S., Hoffmann, R. ISMB (2005). | | | | posters | | Simultaneous exploration of existing knowledgeand novel experimental data. Hoffmann, R. Sander, C., Valencia, A. ISMB(2005). | | iHOP: A gene network for navigating PubMed.Hoffmann, R., Valencia, A. ISMB/ECCB (2004). | | Transcriptional control of epithelial cellpolarity and motility by TIS7. Wick, N., Vietor, I., Cotten, M.,Bister, M., Hoffmann, R., Beyer, A., Zatloukal, K., Huber, L. A. Posterat the I.M.P. Recess (2000). | | Analysis of TIS7 Effects on Epithelial CellMorphology and Gene Expression. Wick, N., Hoffmann, R., Vietor, I.,Cotten, M., Paiha, K., Huber, L. A. Poster at the I.M.P. Recess (1999). | | | | conferences | | Implementing the iHOP concept for navigation ofbiomedical literature. Hoffmann, R., Valencia, A. ECCB (2005). | | iHOP. E-BioSci/ORIEL Annual Workshop. Cambridge,UK (2004). | | Navigating PubMed. E-BioSci/ORIEL AnnualWorkshop. Varenna, Italy (2003). | | Text discovery tools. Application to cancerresearch. Leuven, Belgium (2002). | | Mining the Biomedical Literature. ISMB tutorial(2001). | | | | languages | | Fluent in English, German and Spanish. | | | | professional development | | 2005 | | - | | Post-doctoral research fellow,Memorial Sloan-Kettering Cancer Center, New York. | | 2001 | | 2005 | | PHD program, NationalCenter of Biotechnology (CNB), Madrid, Spain. | | | | | | Marie Curie Fellowship (4/2004).Collaboration with the IntAct protein interaction database, EuropeanBioinformatics Institute, Cambridge, United Kingdom. | | 2000 | | | | Independent consultantand software developer, Vienna, Austria. | | 1999 | | | | Software developmentfor the administration and analysis of microarray experiments (Java andC++), Institute of Molecular Pathology, Boehringer Ingelheim, Vienna,Austria. | | 1998 | - | 1999 | | Diploma thesis headedby Dr. Peter Schuster, Institute of Molecular Pathology, BoehringerIngelheim / Institute for Theoretical Chemistry, Vienna, Austria. | | 1997 | | | | Practical training;Development of an application for the management of clones andrestriction maps, Biochemical Institute, Vienna, Austria. |
| programmingskills | | | | object orientedlanguages | | Java, C++ | | data exchange | | XML, XSL | | scripting languages | | HTML, JavaScript, Perl | | database design | | Postgres, Oracle, SQL, jdbc | | server-side | | JSP, XSP, Tomcat, Cocoon | | operating systems | | Unix, Linux, win | | statistical analysis | | R, spss, splus |
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