Research Report 2003 - Max-Planck-Institut für molekulare Genetik

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Department of Vertebrate Genomics 24 Radelof U, Hennig S, Seranski P, Steinfath M, Ramser J, Reinhard R, Poustka A, Francis F & Lehrach H (1998). Preselection of shotgun clones by oligonucleotide fingerprinting: an efficient and high throughput strategy to reduce redundancy in large-scale sequencing projects. Nucl Acids Res 26: 5358-5364 Meier-Ewert S, Lange J, Gerst H, Herwig R, Schmitt AO, Freund J, Elge T, Mott R, Herrmann B & Lehrach H (1998). Comparative gene expression profiling by oligonucleotide fingerprinting. Nucl Acids Res 26(9):2216-2223 Panopoulou G, Clark M, Gerst H, Herwig R, Holland LZ, Holland ND & Lehrach H (1998). Large-scale identification of amphioxus genes from different developmental stages using oligonucleotide fingerprinting. Develop Biol 198(1):200-201 Theses Ralf Herwig: Large-scale information-theoretic clustering with application to genetic fingerprinting data, PhD Thesis, Free University of Berlin, 02/2001, sponsored by Max-Planck- Society Sven Kiesewetter: GEx – an interactive program for the visualisation and validation of gene expression profiles (in German), Bachelor Thesis in Bioinformatics, Free University of Berlin (submitted) External funding BMBF Grant 01GR0105, National Genome Research Network, Core Area Platform 7, Bioinformatics and Databases (03/2001-10/ 2004) EU Framework 6, EMI-CD - European Modelling Initiative combating complex diseases (01/2004-12/2006) International academic co-operations Prof. Dr. Doron Lancet, Weizmann Institute of Science, Rehovot, Israel Prof. Dr. Ron Shamir, Department of Computer Science, Tel-Aviv University, Israel. Dr. Pia Aanstad, University of California San Francisco. Dep. of Biochemistry and Biophysics, USA Dr. Ewan Birney, EBI, ENSEMBL group, Cambridge, UK Dr. John O’Brien, Department of Clinical Pharmacology, Royal College of Surgeon in Ireland Dublin, Ireland Dr. Dolores Cahill, Centre for Proteome Research, Dublin, Ireland Prof. Dr. John Williams, Roslin Institute, Edinburgh, UK Dr. Philippe Rouet, Faculty of Medicine, INSERM U586, Toulouse, France National academic co-operations Prof. Dr. Martin Vingron, Max-Planck-Institute for Molecular Genetics, Dep. of Computational Biology Prof. Dr. Christine Müller, University of Oldenburg, Dep. of Mathematics Prof. Dr. R. Heinrich, Humboldt University Berlin Prof. Dr. H.-P. Herzel, Humboldt University Berlin Prof. Dr. E. Wanker, Max-Delbrück-Center Buch Prof. Dr. H. Joost, German Institute for Human Nutrition, Dep. Pharmacology Dr. Stefan Bläß, Charité Berlin, Dep. of Rheumatology and Clinical Immunology Prof. Dr. Bernd Weisshaar, MPI for Plant Breeding Research, Cologne Prof. Dr. J. Brosius, University of Münster, Inst. of Experimental Pathology Dr. Lutz Walter, University of Göttingen, Dept. of Immunogenetics Dr. Boris Ivandic, University of Heidelberg, Dept. of Cardiology Industrial co-operations Dr. Arif Malik, MicroDiscovery GmbH Berlin Dr. Thure Etzold, LION Bioscience Ltd., Cambridge, UK Dr. Uwe Radelof, RZPD Berlin Dr. Holger Eickhoff, Scienion GmbH Berlin Dr. Britta Schulz, KWS Saatzucht AG Einbeck
Mouse, Medaka & MHC Group Head: Dr. Heinz Himmelbauer Phone: +49 (0)30-8413 1354 Fax: +49 (0)30-8413 1128 Email: himmelbauer@molgen.mpg.de Scientist: Katarina Bilikova (since 08/2003) Graduate students: Peter Hurt (since 01/2001) Anja Berger (since 04/2001) Boris Greber (since 06/2001) Maryam Zadeh-Khorasani (since 09/2001) Undergraduate students: Christoph Campregher (until 06/2003) Gabriele Hebenstreit, (since 07/2002) Technicians: Stefanie Palczewski Andreas Hirsch Scientific overview With the sequence of the human genome completed and the majority of human genes known, the focus shifts to model organisms, for comparative genome analysis and for the analysis of gene function. Our model system of choice since 1995 has been the mouse. Complementing work in rat and medaka (rice fish) was initiated in 2001. Mouse mapping and proteomics For the mouse, we initially focussed onto marker development for the genetic and physical mapping of the mouse genome (1-4, 9-11) and established a YAC/BAC map with 12,000 novel markers (18). In addition, similar technologies were applied to the rat (6, 16). A number of mouse genes were characterized in several collaborations at the national and international level (5,8,12,13,14). Subsequently, we proceeded with functional studies, applying subtractive cDNA hybridisation and complex probes for the analysis of gene expression differences during mouse placental development (15, 17). This allowed us to identify over 600 genes that are differentially regulated in the two stages we examined (together with R. Fundele, now at Lund University, Sweden). In co-operation with the Klose group (Charité, Berlin), we separated brain proteins on high-resolution 2D-protein gels. 1,324 polymorphic proteins were detected, of which 665 could be mapped genetically (7,19). Interestingly, protein polymorphisms were to some extent due to modifying activities that segregated on the cross. We also found that quantitative variations in protein amounts were mostly inherited in an allele-specific manner. Chemical mutagenesis of mouse ES cells Under funding by the NGFN we are currently carrying out a project to create and screen libraries of chemically mutagenised mouse ES cells to create a resource of mutagenised ES cells that can be screened for mutations within any gene, with particular focus on genes with biomedical relevance, such that appropriate mouse models can be generated. As part of this project, we have tested TMP (trimethylpsoralen) and 4-NQO (4-nitroquinoline-N-oxide), which had previously not been used for ES cell mutagenesis as well as ENU (ethylnitrosourea), a well-characterized mutagen as control, for their power to induce mutations in ES cells (21). For each mutagen, the MPI for Molecular Genetics Research Report 2003 25
Page 1 and 2: Max-Planck-Institut für molekulare
Page 3 and 4: Table of Contents The Max Planck In
Page 5 and 6: MPI for Molecular Genetics Research
Page 7 and 8: The Max Planck Institute for Molecu
Page 9 and 10: Department of Vertebrate Genomics I
Page 11 and 12: To generate high resolution express
Page 13 and 14: Competitive position Since a long t
Page 15 and 16: the Protein Structure Factory. Fina
Page 17 and 18: Mass Spectrometry Group Head: Dr. J
Page 19 and 20: different tissues of A. thaliana, w
Page 21 and 22: Bioinformatics Group Heads: Ralf He
Page 23 and 24: a) Evolutionary studies In a recent
Page 25: Fuchs T, Malecova B, Linhart C, Sha
Page 29 and 30: General information Publications 19
Page 31 and 32: Jochen Wittbrodt, EMBL, Heidelberg
Page 35 and 36: THETA - Two Hybrid Transfected-cell
Page 37 and 38: Academical co-operations Andreas Ra
Page 39 and 40: The investigation of signaling path
Page 41 and 42: In vitro Ligand Screening Group Hea
Page 45 and 46: Neurodegenerative Disorders Group H
Page 47 and 48: Automation Group Graduate students:
Page 49 and 50: In addition, novel methods for the
Page 51 and 52: Sittler A, Walter S, Wedemeyer N, H
Page 53 and 54: Prof. Dr. Joachim Klose, Institut f
Page 55 and 56: eral years. This ambiguity is partl
Page 57 and 58: Clark MD, Panopoulou GD, Cahill DJ,
Page 59 and 60: integrations were passaged to the g
Page 63 and 64: Protein Group Scientists: Sabine Ba
Page 65 and 66: Kersten B, Bürkle L, Kuhn EJ, Giav
Page 67 and 68: Cardiovascular Genetics Group Head:
Page 69 and 70: protein interaction partners and at
Page 73 and 74: Chromosome 21 Group Head: Marie-Lau
Page 77 and 78:
Department of Human Molecular Genet
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Network (NGFN). Recently, DNA from
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Finally, several of these groups ar
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Neurochemistry Group & Mouse Lab Gr
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studies. Furthermore, these mice wi
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Noonan syndrome and related disorde
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Chromosome Rearrangements & Disease
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General information Selected Public
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DNA Microarrays Scientists: Dr. Fik
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General information Publications He
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that in addition to reduced prolife
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Christoph Redies, Prof. Dr., Instit
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Since my move to the MPIMG in 11/20
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Biochemistry of Inherited Brain Dis
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Schweiger S, Chaoui R, Tennstedt C,
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Until 2002, 13 genes have been impl
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General information Selected public
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Department of Computational Molecul
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EU: The European Molecular Biology
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EST tissue distribution Besides the
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Protein Families & Evolution Group
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General information Publications 20
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We make use of the well-known HMMer
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Theses Benjamin Georgi: A graph-bas
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wide analysis of tyrosine as well a
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Further projects include multiple t
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Co-operations Identification and fu
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upstream of the translational start
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Department of Developmental Genetic
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2000; see figure 1). So far, we hav
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partners are. We also want to find
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Emeritus Group General Molecular Ge
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Sethmann S, Ceglowski P, Willert J,
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Research Group Development & Diseas
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MPI for Molecular Genetics Research
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Goals An important future goal is t
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Independent Junior Research Groups
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over, daf-9 is tightly regulated by
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European C.elegans Meeting, Blanken
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and at the ribosomal DNA locus. One
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lencer, has so far remained unchara
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Molecular control of skeletal devel
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BMPs, into a common control network
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this end I plan to analyze mouse mu
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Ribosome Group The Ribosome group c
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General information Selected Public
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group during the same period. In ad
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11) Agmon I, Auerbach T, Baram D, B
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Reconstitution & function The ribos
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Wendrich TM, Blaha G, Wilson DN, Ma
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Miscellaneous Research Groups There
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vealed that the extraordinary stabi
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34. Thorsted PB, Macartney DP, Akht
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esis and DNA packaging of this phag
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Other launched projects concern con
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BMBF 01GR0105, Plattform 1.1: NGFN
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DNA synthesis, lipid biosynthesis,
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Administration & Research Support H
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Technical Management and Workshops
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tion based on the simplified GOOD a
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Library Librarians: Dipl.-Fachinf.
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How to get to the Institute Max Pla
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Research Report 2003 - Max-Planck-Institut für molekulare Genetik

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