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Staff at EMBL

Bernd Fischer

Research Associate
Huber Group

EMBL Heidelberg, Meyerhofstraße 1, 69117 Heidelberg, Germany

E-mail: bernd.fischer@embl.de
Web page: http://www-huber.embl.de/users/befische/

Publications

h5vc: Scalable nucleotide tallies with HDF5. Pyl, P.T., Gehring, J., Fischer, B. & Huber, W. Bioinformatics. 2014 Jan 21. Europe PMC

The RNA-binding protein repertoire of embryonic stem cells. Kwon, S.C., Yi, H., Eichelbaum, K., Fohr, S., Fischer, B., You, K.T., Castello, A., Krijgsveld, J., Hentze, M.W. & Kim, V.N. Nat Struct Mol Biol. 2013 Sep;20(9):1122-30. doi: 10.1038/nsmb.2638. Epub 2013Aug 4. Europe PMC

Properties of isotope patterns and their utility for peptide identification in large-scale proteomic experiments. Okawa, S., Fischer, B. & Krijgsveld, J. Rapid Commun Mass Spectrom. 2013 May 15;27(9):1067-75. doi: 10.1002/rcm.6551. Europe PMC

Mapping genetic interactions in human cancer cells with RNAi and multiparametric phenotyping. Laufer, C., Fischer, B., Billmann, M., Huber, W. & Boutros, M. Nat Methods. 2013 May;10(5):427-31. doi: 10.1038/nmeth.2436. Epub 2013 Apr 7. Europe PMC

RNA-binding proteins in Mendelian disease. Castello, A., Fischer, B., Hentze, M.W. & Preiss, T. Trends Genet. 2013 May;29(5):318-27. doi: 10.1016/j.tig.2013.01.004. Epub 2013Feb 15. Europe PMC

CellH5: a format for data exchange in high-content screening. Sommer, C., Held, M., Fischer, B., Huber, W. & Gerlich, D.W. Bioinformatics. 2013 Jun 15;29(12):1580-2. doi: 10.1093/bioinformatics/btt175.Epub 2013 Apr 16. Europe PMC

System-wide identification of RNA-binding proteins by interactome capture. Castello, A., Horos, R., Strein, C., Fischer, B., Eichelbaum, K., Steinmetz, L.M., Krijgsveld, J. & Hentze, M.W. Nat Protoc. 2013 Feb 14;8(3):491-500. doi: 10.1038/nprot.2013.020. Epub 2013 Feb14. Europe PMC

A cross-platform toolkit for mass spectrometry and proteomics. Chambers, M.C., Maclean, B., Burke, R., Amodei, D., Ruderman, D.L., Neumann, S., Gatto, L., Fischer, B., Pratt, B., Egertson, J., Hoff, K., Kessner, D., Tasman, N., Shulman, N., Frewen, B., Baker, T.A., Brusniak, M.Y., Paulse, C., Creasy, D., Flashner, L., Kani, K., Moulding, C., Seymour, S.L., Nuwaysir, L.M., Lefebvre, B., Kuhlmann, F., Roark, J., Rainer, P., Detlev, S., Hemenway, T., Huhmer, A., Langridge, J., Connolly, B., Chadick, T., Holly, K., Eckels, J., Deutsch, E.W., Moritz, R.L., Katz, J.E., Agus, D.B., MacCoss, M., Tabb, D.L. & Mallick, P. Nat Biotechnol. 2012 Oct;30(10):918-20. doi: 10.1038/nbt.2377. Europe PMC

Insights into RNA Biology from an Atlas of Mammalian mRNA-Binding Proteins. Castello, A., Fischer, B., Eichelbaum, K., Horos, R., Beckmann, B.M., Strein, C., Davey, N.E., Humphreys, D.T., Preiss, T., Steinmetz, L.M., Krijgsveld, J. & Hentze, M.W. Cell. 2012 Jun 8;149(6):1393-406. Epub 2012 May 31. Europe PMC

Mapping of signaling networks through synthetic genetic interaction analysis by RNAi. Horn, T., Sandmann, T., Fischer, B., Axelsson, E., Huber, W. & Boutros, M. Nat Methods. 2011 Apr;8(4):341-6. Epub 2011 Mar 6. Europe PMC

Extracting quantitative genetic interaction phenotypes from matrix combinatorial RNAi. Axelsson, E., Sandmann, T., Horn, T., Boutros, M., Huber, W. & Fischer, B. BMC Bioinformatics. 2011 Aug 17;12:342. Europe PMC

CellCognition: time-resolved phenotype annotation in high-throughput live cell imaging. Held, M., Schmitz, M.H., Fischer, B., Walter, T., Neumann, B., Olma, M.H., Peter, M., Ellenberg, J. & Gerlich, D.W. Nat Methods. 2010 Sep;7(9):747-54. doi: 10.1038/nmeth.1486. Epub 2010 Aug 8. Europe PMC