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Matthias Wilm

Professor of Bioanalytics

Conway Institute
Conway Institute
Belfield
Dublin 4

Tel: +353 1 716
Email: matthias.wilm@ucd.ie

Biography

  • Studied mathematics, physics and medicine in Münster (Germany) and finished with a degree in medicine and physics in 1990
  • Did an MD in radiology in 1991 in Münster and a PhD in physics between 1992 and 1996 at the European Molecular Biology Laboratory (EMBL) in Heidelberg  
  • Became group leader at the EMBL in 1998
  • Became Stokes Professor at the UCD-Conway Institute in 2008
  • Predicted already in 1989 in course of the Diploma project in the physics department in Münster that electrospray could be an ion source for molecules of unlimited size
  • Helped to show how mass spectrometers can be used to identify and sequence peptides in a very sensitive way during the PhD project in Heidelberg
  • Was a major driver to demonstrate that the Tandem Affinity Purification method (TAP) invented by Bertrand Seraphin will make functional proteomics possible
  • Invented the modification of the TAP method to better use it in higher eukaryotic cells (iTAP method)
  • Demonstrated that parallel fragmentation of peptides can be used to screen for many peptide modifications simultaneously
  • Participation in the European research projects PRIMES (Protein interaction machines in oncogenic EGF receptor signalling) to investigate the role of static and dynamic protein networks in the pathogenesis of colorectal cancer (see http://www.ucd.ie/sbi/research/areasofresearch/sbicollaborativeprojects/primesfp7). This research is embedded into the research of the System Biology Ireland institute (see http://www.ucd.ie/sbi/). 

General Interest: Bring mass spectrometry to its full potential in biological research

(Details see: http://www.mwilm-conway-ucd.de)

Publications

 

Book Chapters

Wilm, M.; (2000) 'Mass spectrometric analysis of proteins' In: Advances in Protein Chemistry, Vol 54. San Diego: Academic Press Inc. Available Online [Details]
 

Peer Reviewed Journals

Danckwardt, S,Gantzert, AS,Macher-Goeppinger, S,Probst, HC,Gentzel, M,Wilm, M,Grone, HJ,Schirmacher, P,Hentze, MW,Kulozik, AE; (2011) 'p38 MAPK Controls Prothrombin Expression by Regulated RNA 3 ' End Processing'. Molecular cell, 41 :298-310. [DOI] [Details]
Wilm, M; (2011) 'Principles of Electrospray Ionization'. Molecular & Cellular Proteomics, 10 (7). Available Online [DOI] [Details]
Matthias Wilm; (2009) 'Quantitative proteomics in biological research'. Proteomics, 9 (20):4590-4605. Available Online [DOI] [Details]
Yokoyama, H.,Gruss, O. J.,Rybina, S.,Caudron, M.,Schelder, M.,Wilm, M.,Mattaj, I. W.,Karsenti, E.; (2008) 'Cdk11 is a RanGTP-dependent microtubule stabilization factor that regulates spindle assembly rate'. Journal of Cell Biology, 180 (5):867-875. Available Online [Details]
Thoma, C.,Fraterman, S.,Gentzel, M.,Wilm, M.,Hentze, M. W.; (2008) 'Translation initiation by the c-myc mRNA internal ribosome entry sequence and the poly(A) tail'. Rna-a Publication of the Rna Society, 14 (8):1579-1589. Available Online [Details]
Kitao, S.,Segref, A.,Kast, J.,Wilm, M.,Mattaj, I. W.,Ohno, M.; (2008) 'A compartmentalized phosphorylation/dephosphorylation system that regulates U snRNA export from the nucleus'. Molecular and Cellular Biology, 28 (1):487-497. Available Online [Details]
Welti, S.,Fraterman, S.,D'Angelo, I.,Wilm, M.,Scheffzek, K.; (2007) 'The Sec14 homology module of neurofibromin binds cellular glycerophospholipids: mass spectrometry and structure of a lipid complex'. Journal of Molecular Biology, 366 (2):551-562. Available Online [Details]
Wabnitz, G. H.,Kocher, T.,Lohneis, P.,Stober, C.,Konstandin, M. H.,Funk, B.,Sester, U.,Wilm, M.,Klemke, M.,Samstag, Y.; (2007) 'Costimulation induced phosphorylation of L-plastin facilitates surface transport of the T cell activation molecules CD69 and CD25'. European Journal of Immunology, 37 (3):649-662. Available Online [Details]
Roukos, V.,Iliou, M. S.,Nishitani, H.,Gentzel, M.,Wilm, M.,Taraviras, S.,Lygerou, Z.; (2007) 'Geminin cleavage during apoptosis by caspase-3 alters its binding ability to the SWI/SNF subunit brahma'. Journal of Biological Chemistry, 282 (13):9346-9357. Available Online [Details]
Nekrasov, M.,Klymenko, T.,Fraterman, S.,Papp, B.,Oktaba, K.,Kocher, T.,Cohen, A.,Stunnenberg, H. G.,Wilm, M.,Muller, J.; (2007) 'Pcl-PRC2 is needed to generate high levels of H3-K27 trimethylation at Polycomb target genes'. Embo Journal, 26 (18):4078-4088. Available Online [Details]
Fraterman, S.,Zeiger, U.,Khurana, T. S.,Wilm, M.,Rubinstein, N. A.; (2007) 'Quantitative proteomics profiling of sarcomere associated proteins in limb and extraocular muscle allotypes'. Molecular & Cellular Proteomics, 6 (4):728-737. Available Online [Details]
Fraterman, S.,Zeiger, U.,Khurana, T. S.,Rubinstein, N. A.,Wilm, M.; (2007) 'Combination of peptide OFFGEL fractionation and label-free quantitation facilitated proteomics profiling of extraocular muscle'. Proteomics, 7 (18):3404-3416. Available Online [Details]
Danckwardt, S.,Kaufmann, I.,Gentzel, M.,Foerstner, K. U.,Gantzert, A. S.,Gehring, N. H.,Neu-Yilik, G.,Bork, P.,Keller, W.,Wilm, M.,Hentze, M. W.,Kulozik, A. E.; (2007) 'Splicing factors stimulate polyadenylation via USEs at non-canonical 3 ' end formation signals'. Embo Journal, 26 (11):2658-2669. Available Online [Details]
Antl, M.,von Bruhl, M. L.,Eiglsperger, C.,Werner, M.,Konrad, I.,Kocher, T.,Wilm, M.,Hofmann, F.,Massberg, S.,Schlossmann, J.; (2007) 'IRAG mediates NO/cGMP-dependent inhibition of platelet aggregation and thrombus formation'. Blood, 109 (2):552-559. Available Online [Details]
von Bruehl, M. L.,Klinik, I. M.,Anti, M.,Konrad, I.,Klink, I. M.,Eigelsperger, C.,Werner, M.,Wilm, M.,Hofmann, F.,Schlossmann, J.,Klinik, I. M.; (2006) 'NO-Dependent inhibition of platelet adhesion/aggregation is mediated by IRAG phosphorylation in vivo'. Circulation, 114 (18):181-181. Available Online [Details]
Ribbeck, K.,Groen, A. C.,Santarella, R.,Bohnsack, M. T.,Raemaekers, T.,Kocher, T.,Gentzel, M.,Gorlich, D.,Wilm, M.,Carmeliet, G.,Mitchison, T. J.,Ellenberg, J.,Hoenger, A.,Mattaj, I. W.; (2006) 'NuSAP, a mitotic RanGTP target that stabilizes and cross-links microtubules'. Molecular Biology of the Cell, 17 (6):2646-2660. Available Online [Details]
Duncan, K.,Grskovic, M.,Strein, C.,Beckmann, K.,Niggeweg, R.,Abaza, I.,Gebauer, F.,Wilm, M.,Hentze, M. W.; (2006) 'Sex-lethal imparts a sex-specific function to UNR by recruiting it to the msl-2 mRNA 3 ' UTR: translational repression for dosage compensation'. Genes & Development, 20 (3):368-379. Available Online [Details]
Bruhl, M. L. V.,Anti, M.,Konrad, I.,Eigelsperger, C.,Werner, M.,Wilm, M.,Hofmann, F.,Schlossmann, J.,Massberg, S.; (2006) 'IRAG mediates NO/cGMP-dependent inhibition of platelet aggregation and thrombus formation in vivo'. Journal of Vascular Research, 43 :64-64. Available Online [Details]
Belyi, Y.,Niggeweg, R.,Opitz, B.,Vogelsgesang, M.,Hippenstiel, S.,Wilm, M.,Aktories, K.; (2006) 'Legionella pneumophila glucosyltransferase inhibits host elongation factor 1A'. Proceedings of the National Academy of Sciences of the United States of America, 103 (45):16953-16958. Available Online [Details]
Bruehl, M. L. V.,Antl, M.,Konrad, I.,Eigelsperger, C.,Werner, M.,Wilm, M.,Hofmann, F.,Schlossmann, J.,Massberg, S.; (2006) 'IRAG-phosphorylation conveys NO/cGMP-dependent inhibition of platelet/vessel wall interaction in vivo'. Journal of Vascular Research, 43 (6):573-574. Available Online [Details]
Danckwardt, S.,Gentzel, M.,Gehring, N. H.,Kaufmann, I.,Neu-Yilik, G.,Wilm, M.,Hentze, M. W.,Kulozjk, A. E.; (2006) 'The physiology of prothrombin gene expression integrates RNA polyadenylation and splicing in a novel regulatable 3 ' RNP-complex'. Blood, 108 (11):458A-458A. Available Online [Details]
Franz, T.,Li, X.,Wilm, M.; (2006) 'Silicone/graphite coating for improved peptide mapping of matrix-assisted laser desorption/ionization-mass spectrometry targets in proteomic experiments'. Molecular & Cellular Proteomics, 5 (10):S39-S39. Available Online [Details]
Niggeweg, R.,Kocher, T.,Gentzel, M.,Buscaino, A.,Taipale, M.,Akhtar, A.,Wilm, M.; (2006) 'A general precursor ion-like scanning mode on quadrupole-TOF instruments compatible with chromatographic separation'. Proteomics, 6 (1):41-53. Available Online [Details]
Koffa, M. D.,Casanova, C. M.,Santarella, R.,Kocher, T.,Wilm, M.,Mattaj, I. W.; (2006) 'HURP is part of a ran-dependent complex involved in spindle formation'. Current Biology, 16 (8):743-754. Available Online [Details]
Klymenko, T.,Papp, B.,Fischle, W.,Kocher, T.,Schelder, M.,Fritsch, C.,Wild, B.,Wilm, M.,Muller, J.; (2006) 'A Polycomb group protein complex with sequence-specific DNA-binding and selective methyl-lysine-binding activities'. Genes & Development, 20 (9):1110-1122. Available Online [Details]
Shin, H. W.,Hayashi, M.,Christoforidis, S.,Lacas-Gervais, S.,Hoepfner, S.,Wenk, M. R.,Modregger, J.,Uttenweiler-Joseph, S.,Wilm, M.,Nystuen, A.,Frankel, W. N.,Solimena, M.,De Camilli, P.,Zerial, M.; (2005) 'An enzymatic cascade of Rab5 effectors regulates phosphoinositide turnover in the endocytic pathway'. Journal of Cell Biology, 170 (4):607-618. Available Online [Details]
Li, X. P.,Wilm, M.,Franz, T.; (2005) 'Silicone/graphite coating for on-target desalting and improved peptide mapping performance of matrix-assisted laser desorption/ionization-mass spectrometry targets in proteomic experiments'. Proteomics, 5 (6):1460-1471. Available Online [Details]
Franz, C.,Askjaer, P.,Antonin, W.,Iglesias, C. L.,Haselmann, U.,Schelder, M.,de Marco, A.,Wilm, M.,Antony, C.,Mattaj, I. W.; (2005) 'Nup155 regulates nuclear envelope and nuclear pore complex formation in nematodes and vertebrates'. Embo Journal, 24 (20):3519-3531. Available Online [Details]
Czaplinski, K.,Kocher, T.,Schelder, M.,Segref, A.,Wilm, M.,Mattaj, I. W.; (2005) 'Identification of 40LoVe, a Xenopus hnRNP D family protein involved in localizing a TGF-beta-related mRNA during oogenesis'. Developmental Cell, 8 (4):505-515. Available Online [Details]
Antl, M.,Eigelsperger, C.,Werner, M.,Kocher, T.,Wilm, M.,Hofmann, F.,Schlossmann, J.; (2005) 'Phosphorylation and function of the inositol 1,4,5-trisphosphate receptor-associated CGMP kinase substrate (IRAG) in platelets'. Naunyn-Schmiedebergs Archives of Pharmacology, 371 :R39-R39. Available Online [Details]
Schnatwinkel, C.,Christoforidis, S.,Lindsay, M. R.,Uttenweiler-Joseph, S.,Wilm, M.,Parton, R. G.,Zerial, M.; (2004) 'The Rab5 effector rabankyrin-5 regulates and coordinates different endocytic mechanisms'. Plos Biology, 2 (9):1363-1380. Available Online [Details]
Rehwinkel, J.,Herold, A.,Gari, K.,Kocher, T.,Rode, M.,Ciccarelli, F. L.,Wilm, M.,Izaurralde, E.; (2004) 'Genome-wide analysis of mRNAs regulated by the THO complex in Drosophila melanogaster'. Nature Structural & Molecular Biology, 11 (6):558-566. Available Online [Details]
Miaczynska, M.,Christoforidis, S.,Giner, A.,Shevchenko, A.,Uttenweiler-Joseph, S.,Habermann, B.,Wilm, M.,Parton, R. G.,Zerial, M.; (2004) 'APPL proteins link Rab5 to nuclear signal transduction via an endosomal compartment'. Cell, 116 (3):445-456. Available Online [Details]
Fethiere, J.,Venzke, D.,Diepholz, M.,Seybert, A.,Geerlof, A.,Gentzel, M.,Wilm, M.,Bottcher, B.; (2004) 'Building the stator of the yeast vacuolar-ATPase - Specific interaction between subunits E and G'. Journal of Biological Chemistry, 279 (39):40670-40676. Available Online [Details]
Makarova, O. V.,Makarov, E. M.,Urlaub, H.,Will, C. L.,Gentzel, M.,Wilm, M.,Luhrmann, R.; (2004) 'A subset of human 35S U5 proteins, including Prp19, function prior to catalytic step 1 of splicing'. Embo Journal, 23 (12):2381-2391. Available Online [Details]
Koffa, M. D.,Schatz, C. A.,Kocher, T.,Wilm, M.,Mattaj, I. W.; (2004) 'Identification of a Ran - Regulated complex involved in spindle bipolarity'. Molecular Biology of the Cell, 15 :165A-165A. Available Online [Details]
Karetsou, Z.,Martic, G.,Tavoulari, S.,Christoforidis, S.,Wilm, M.,Gruss, C.,Papamarcaki, T.; (2004) 'Prothymosin alpha associates with the oncoprotein SET and is involved in chromatin decondensation'. Febs Letters, 577 (3):496-500. Available Online [Details]
Hachet, V.,Kocher, T.,Wilm, M.,Mattaj, I. W.; (2004) 'Importin a associates with membranes and participates in nuclear envelope assembly in vitro'. Embo Journal, 23 (7):1526-1535. Available Online [Details]
Forler, D.,Niggeweg, R.,Kocher, T.,Gentzel, M.,Schelder, M.,Izaurralde, E.,Wilm, M.; (2004) 'iTAP: An in vivo protein complex purification technique for functional proteomics in higher eukaryotes'. Faseb Journal, 18 (8):C151-C151. Available Online [Details]
Walther, T. C.,Askjaer, P.,Gentzel, M.,Habermann, A.,Griffiths, G.,Wilm, M.,Mattaj, I. W.,Hetzer, M.; (2003) 'RanGTP mediates nuclear pore complex assembly'. Nature, 424 (6949):689-694. Available Online [Details]
Walther, T. C.,Alves, A.,Pickersgill, H.,Loiodice, I.,Hetzer, M.,Galy, V.,Hulsmann, B. B.,Kocher, T.,Wilm, M.,Allen, T.,Mattaj, L. W.,Doye, V.; (2003) 'The conserved Nup107-160 complex is critical for nuclear pore complex assembly'. Cell, 113 (2):195-206. Available Online [Details]
Schell, T.,Kocher, T.,Wilm, M.,Seraphin, B.,Kulozik, A. E.,Hentze, M. W.; (2003) 'Complexes between the nonsense-mediated mRNA decay pathway factor human upf1 (up-frameshift protein 1) and essential nonsense-mediated mRNA decay factors in HeLa cells'. Biochemical Journal, 373 :775-783. Available Online [Details]
Schambony, A.,Hefele, J. A.,Gentzel, M.,Wilm, M.,Wedlich, D.; (2003) 'A homologue of cysteine-rich secretory proteins induces premature degradation of vitelline envelopes and hatching of Xenopus laevis embryos'. Mechanisms of Development, 120 (8):937-948. Available Online [Details]
Ortega, A.,Niksic, M.,Bachi, A.,Wilm, M.,Sanchez, L.,Hastie, N.,Valcarcel, J.; (2003) 'Biochemical function of female-lethal (2)D/Wilms' tumor suppressor-1-associated proteins in alternative pre-mRNA splicing'. Journal of Biological Chemistry, 278 (5):3040-3047. Available Online [Details]
Ledesma, M. D.,Da Silva, J. S.,Schevchenko, A.,Wilm, M.,Dotti, C. G.; (2003) 'Proteomic characterisation of neuronal sphingolipid-cholesterol microdomains: Role in plasminogen activation'. Brain Research, 987 (1):107-116. Available Online [Details]
Kocher, T.,Allmaier, G.,Wilm, M.; (2003) 'Nanoelectrospray-based detection and sequencing of substoichiometric amounts of phosphopeptides in complex mixtures'. Journal of Mass Spectrometry, 38 (2):131-137. Available Online [Details]
Kast, J.,Parker, C. E.,van der Drift, K.,Dial, J. M.,Milgram, S. L.,Wilm, M.,Howell, M.,Borchers, C. H.; (2003) 'Matrix-assisted laser desorption/ionization directed nano-electrospray ionization tandem mass spectrometric analysis for protein identification'. Rapid Communications in Mass Spectrometry, 17 (16):1825-1834. Available Online [Details]
Kast, J.,Gentzel, M.,Wilm, M.,Richardson, K.; (2003) 'Noise filtering techniques for electrospray quadrupole time of flight mass spectra'. Journal of the American Society for Mass Spectrometry, 14 (7):766-776. Available Online [Details]
Gentzel, M.,Kocher, T.,Ponnusamy, S.,Wilm, M.; (2003) 'Preprocessing of tandem mass spectrometric data to support automatic protein identification'. Proteomics, 3 (8):1597-1610. Available Online [Details]
Forler, D.,Kocher, T.,Rode, M.,Gentzel, M.,Izaurralde, E.,Wilm, M.; (2003) 'An efficient protein complex purification method for functional proteomics in higher eukaryotes'. Nature Biotechnology, 21 (1):89-92. Available Online [Details]
Buscaino, A.,Kocher, T.,Kind, J. H.,Holz, H.,Taipale, M.,Wagner, K.,Wilm, M.,Akhtar, A.; (2003) 'MOF-Regulated acetylation of MSL-3 in the Drosophila dosage compensation complex'. Molecular Cell, 11 (5):1265-1277. Available Online [Details]
Will, C. L.,Urlaub, H.,Achsel, T.,Gentzel, M.,Wilm, M.,Luhrmann, R.; (2002) 'Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein'. Embo Journal, 21 (18):4978-4988. Available Online [Details]
Westermarck, J.,Weiss, C.,Saffrich, R.,Kast, J.,Musti, A. M.,Wessely, M.,Ansorge, W.,Seraphin, B.,Wilm, M.,Valdez, B. C.,Bohmann, D.; (2002) 'The DEXD/H-box RNA helicase RHII/Gu is a co-factor for c-Jun-activated transcription'. Embo Journal, 21 (3):451-460. Available Online [Details]
Stemmann, O.,Neidig, A.,Kocher, T.,Wilm, M.,Lechner, J.; (2002) 'Hsp90 enables Ctf13p/Skp1p to nucleate the budding yeast kinetochore'. Proceedings of the National Academy of Sciences of the United States of America, 99 (13):8585-8590. Available Online [Details]
Makarov, E. M.,Makarova, O. V.,Urlaub, H.,Gentzel, M.,Will, C. L.,Wilm, M.,Luhrmann, R.; (2002) 'Small nuclear ribonucleoprotein remodeling during catalytic activation of the spliceosome'. Science, 298 (5601):2205-2208. Available Online [Details]
Hartmuth, K.,Urlaub, H.,Vornlocher, H. P.,Will, C. L.,Gentzel, M.,Wilm, M.,Luhrmann, R.; (2002) 'Protein composition of human prespliceosomes isolated by a tobramycin affinity-selection method'. Proceedings of the National Academy of Sciences of the United States of America, 99 (26):16719-16724. Available Online [Details]
Blandin, S.,Moita, L. F.,Kocher, T.,Wilm, M.,Kafatos, F. C.,Levashina, E. A.; (2002) 'Reverse genetics in the mosquito Anopheles gambiae: targeted disruption of the Defensin gene'. Embo Reports, 3 (9):852-856. Available Online [Details]
Antl, M.,Geiselhoringer, A.,Werner, C.,Kocher, T.,Wilm, M.,Schlossmann, J.,Hofmann, F.; (2002) 'No/cGMP-dependent phosphorylation of IRAG in human platelets'. Naunyn-Schmiedebergs Archives of Pharmacology, 365 :R39-R39. Available Online [Details]
Will, C. L.,Schneider, C.,MacMillan, A. M.,Katopodis, N. F.,Neubauer, G.,Wilm, M.,Luhrmann, R.,Query, C. C.; (2001) 'A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site'. Embo Journal, 20 (16):4536-4546. Available Online [Details]
Eberharter, A.,Ferrari, S.,Langst, G.,Straub, T.,Imhof, A.,Varga-Weisz, P.,Wilm, M.,Becker, P. B.; (2001) 'Acf1, the largest subunit of CHRAC, regulates ISWI-induced nucleosome remodelling'. Embo Journal, 20 (14):3781-3788. Available Online [Details]
Antonio, C.,Kast, J.,Wilm, M.,Vemos, I.; (2001) 'Characterization of the kinesin like protein Xkid: Interacting partners and function in mitotic cells'. Molecular Biology of the Cell, 12 :181A-181A. Available Online [Details]
Dorey, K.,Engen, J. R.,Kretzschmar, J.,Wilm, M.,Neubauer, G.,Schindler, T.,Superti-Furga, G.; (2001) 'Phosphorylation and structure-based functional studies reveal a positive and a negative role for the activation loop of the c-Abl tyrosine kinase'. Oncogene, 20 (56):8075-8084. Available Online [Details]
Gatfield, D.,Le Hir, H.,Schmitt, C.,Braun, I. C.,Kocher, T.,Wilm, M.,Izaurralde, E.; (2001) 'The DExH/D box protein HEL/UAP56 is essential for mRNA nuclear export in Drosophila'. Current Biology, 11 (21):1716-1721. Available Online [Details]
Roguev, A.,Schaft, D.,Shevchenko, A.,Pijnappel, Wwmp,Wilm, M.,Aasland, R.,Stewart, A. F.; (2001) 'The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4'. Embo Journal, 20 (24):7137-7148. Available Online [Details]
Prokhortchouk, A.,Hendrich, B.,Jorgensen, H.,Ruzov, A.,Wilm, M.,Georgiev, G.,Bird, A.,Prokhortchouk, E.; (2001) 'The p120 catenin partner Kaiso is a DNA methylation-dependent transcriptional repressor'. Genes & Development, 15 (13):1613-1618. Available Online [Details]
Pijnappel, Wwmp,Schaft, D.,Roguev, A.,Shevchenko, A.,Tekotte, H.,Wilm, M.,Rigaut, G.,Seraphin, B.,Aasland, R.,Stewart, A. F.; (2001) 'The S-cerevisiae SET3 complex includes two histone deacetylases, Hos2 and Hst1, and is a meiotic-specific repressor of the sporulation gene program'. Genes & Development, 15 (22):2991-3004. Available Online [Details]
Gruss, O. J.,Carazo-Salas, R. E.,Schatz, C. A.,Guarguaglini, G.,Kast, J.,Wilm, M.,Le Bot, N.,Vernos, I.,Karsenti, E.,Mattaj, I. W.; (2001) 'Ran induces spindle assembly by reversing the inhibitory effect of importin alpha on TPX2 activity'. Cell, 104 (1):83-93. Available Online [Details]
Puig, O.,Caspary, F.,Rigaut, G.,Rutz, B.,Bouveret, E.,Bragado-Nilsson, E.,Wilm, M.,Seraphin, B.; (2001) 'The tandem affinity purification (TAP) method: A general procedure of protein complex purification'. Methods, 24 (3):218-229. Available Online [Details]
Schmidt, G.,Goehring, U. M.,Schirmer, J.,Uttenweiler-Joseph, S.,Wilm, M.,Lohmann, M.,Giese, A.,Schmalzing, G.,Aktories, K.; (2001) 'Lysine and polyamines are substrates for transglutamination of Rho by the Bordetella dermonecrotic toxin'. Infection and Immunity, 69 (12):7663-7670. Available Online [Details]
Uttenweiler-Joseph, S.,Neubauer, G.,Christoforidis, A.,Zerial, M.,Wilm, M.; (2001) 'Automated de novo sequencing of proteins using the differential scanning technique'. Proteomics, 1 (5):668-682. Available Online [Details]
Wittmann, T.,Wilm, M.,Karsenti, E.,Vernos, I.; (2000) 'TPX2, a novel Xenopus MAP involved in spindle pole organization'. Journal of Cell Biology, 149 (7):1405-1418. Available Online [Details]
Watty, A.,Neubauer, G.,Dreger, M.,Zimmer, M.,Wilm, M.,Burden, S. J.; (2000) 'The in vitro and in vivo phosphotyrosine map of activated MuSK'. Proceedings of the National Academy of Sciences of the United States of America, 97 (9):4585-4590. Available Online [Details]
Watkins, N. J.,Segault, V.,Charpentier, B.,Nottrott, S.,Fabrizio, P.,Bachi, A.,Wilm, M.,Rosbash, M.,Branlant, C.,Luhrmann, R.; (2000) 'A common core RNP structure shared between the small nucleoar box C/D RNPs and the spliceosomal U4 snRNP'. Cell, 103 (3):457-466. Available Online [Details]
von Kobbe, C.,van Deursen, J. M. A.,Rodrigues, J. P.,Sitterlin, D.,Bachi, A.,Wu, X. S.,Wilm, M.,Carmo-Fonseca, M.,Izaurralde, E.; (2000) 'Vesicular stomatitis virus matrix protein inhibits host cell gene expression by targeting the nucleoporin Nup98'. Molecular Cell, 6 (5):1243-1252. Available Online [Details]
Stutz, F.,Bachi, A.,Doerks, T.,Braun, I. C.,Seraphin, B.,Wilm, M.,Bork, P.,Izaurralde, E.; (2000) 'REF, an evolutionarily conserved family of hnRNP-like proteins, interacts with TAP/Mex67p and participates in mRNA nuclear export'. Rna-a Publication of the Rna Society, 6 (4):638-650. Available Online [Details]
Schlossmann, J.,Ammendola, A.,Ashman, K.,Zong, X. G.,Huber, A.,Neubauer, G.,Wang, G. X.,Allescher, H. D.,Korth, M.,Wilm, M.,Hofmann, F.,Ruth, P.; (2000) 'Regulation of intracellular calcium by a signalling complex of IRAG, IP3 receptor and cGMP kinase I beta'. Nature, 404 (6774):197-201. Available Online [Details]
Schlossmann, J.,Ammendola, A.,Ashman, K.,Huber, A.,Neubauer, G.,Wang, G. X.,Korth, M.,Wilm, M.,Hofmann, F.,Ruth, P.; (2000) 'Regulation of intracellular calcium by a signaling complex of IRAG, IP3 receptor and cGMP kinase'. Biophysical Journal, 78 (1):314A-314A. Available Online [Details]
Ohno, M.,Segref, A.,Bachi, A.,Wilm, M.,Mattaj, I. W.; (2000) 'PHAX, a mediator of U snRNA nuclear export whose activity is regulated by phosphorylation'. Cell, 101 (2):187-198. Available Online [Details]
Nielsen, E.,Christoforidis, S.,Uttenweiler-Joseph, S.,Miaczynska, M.,Dewitte, F.,Wilm, M.,Hoflack, B.,Zerial, M.; (2000) 'Rabenosyn-5, a novel Rab5 effector, is complexed with hVPS45 and recruited to endosomes through a FYVE finger domain'. Journal of Cell Biology, 151 (3):601-612. Available Online [Details]
Lange, B. M. H.,Bachi, A.,Wilm, M.,Gonzalez, C.; (2000) 'Hsp90 is a core centrosomal component and is required at different stages of the centrosome cycle in Drosophila and vertebrates'. Embo Journal, 19 (6):1252-1262. Available Online [Details]
Corona, D. F. V.,Eberharter, A.,Budde, A.,Deuring, R.,Ferrari, S.,Varga-Weisz, P.,Wilm, M.,Tamkun, J.,Becker, P. B.; (2000) 'Two histone fold proteins, CHRAC-14 and CHRAC-16, are developmentally regulated subunits of chromatin accessibility complex (CHRAC)'. Embo Journal, 19 (12):3049-3059. Available Online [Details]
Bouveret, E.,Rigaut, G.,Shevchenko, A.,Wilm, M.,Seraphin, B.; (2000) 'A Sm-like protein complex that participates in mRNA degradation'. Embo Journal, 19 (7):1661-1671. Available Online [Details]
Bachi, A.,Braun, I. C.,Rodrigues, J. P.,Pante, N.,Ribbeck, K.,Von Kobbe, C.,Kutay, U.,Wilm, M.,Gorlich, D.,Carmo-Fonseca, M.,Izaurralde, E.; (2000) 'The C-terminal domain of TAP interacts with the nuclear pore complex and promotes export of specific CTE-bearing RNA substrates'. Rna-a Publication of the Rna Society, 6 (1):136-158. Available Online [Details]
Zech, B.,Wilm, M.,van Eldik, R.,Brune, B.; (1999) 'Mass spectrometric analysis of nitric oxide-modified caspase-3'. Journal of Biological Chemistry, 274 (30):20931-20936. Available Online [Details]
Schrotz-King, P.,Wilm, M.,Andersen, J. S.,Ashman, K.,Podtelejnikov, A. V.,Bachi, A.,King, A.,Mann, M.; (1999) 'Use of mass spectrometric methods for protein identification in receptor research'. Journal of Receptor and Signal Transduction Research, 19 (1-4):659-672. Available Online [Details]
Schmitt, C.,von Kobbe, C.,Bachi, A.,Pante, N.,Rodrigues, J. P.,Boscheron, C.,Rigaut, G.,Wilm, M.,Seraphin, B.,Carmo-Fonseca, M.,Izaurralde, E.; (1999) 'Dbp5, a DEAD-box protein required for mRNA export, is recruited to the cytoplasmic fibrils of nuclear pore complex via a conserved interaction with CAN/Nup159p'. Embo Journal, 18 (15):4332-4347. Available Online [Details]
Rigaut, G.,Shevchenko, A.,Rutz, B.,Wilm, M.,Mann, M.,Seraphin, B.; (1999) 'A generic protein purification method for protein complex characterization and proteome exploration'. Nature Biotechnology, 17 (10):1030-1032. Available Online [Details]
Neubauer, G.,Wilm, M.; (1999) 'From genome to function: Analysis of multi-protein complexes and protein phosphorylation'. Current Opinion in Molecular Therapeutics, 1 (6):695-701. Available Online [Details]
Lange, B. N. H.,Bachi, A.,Wilm, M.,Gonzales, C.; (1999) 'HSP90 is a core centrosomal protein in Drosophila and vertebrate cells'. Molecular Biology of the Cell, 10 :20A-20A. Available Online [Details]
Harada, H.,Becknell, B.,Wilm, M.,Mann, M.,Huang, L. J. S.,Taylor, S. S.,Scott, J. D.,Korsmeyer, S. J.; (1999) 'Phosphorylation and inactivation of BAD by mitochondria-anchored protein kinase A'. Molecular Cell, 3 (4):413-422. Available Online [Details]
Geier, E.,Pfeifer, G.,Wilm, M.,Lucchiari-Hartz, M.,Baumeister, W.,Eichmann, K.,Niedermann, G.; (1999) 'A giant protease with potential to substitute for some functions of the proteasome'. Science, 283 (5404):978-981. Available Online [Details]
Cross, M.,Kieft, R.,Sabatini, R.,Wilm, M.,de Kort, M.,van der Marel, G. A.,van Boom, J. H.,van Leeuwen, F.,Borst, P.; (1999) 'The modified base J is the target for a novel DNA-binding protein in kinetoplastid protozoans'. Embo Journal, 18 (22):6573-6581. Available Online [Details]
Christoforidis, S.,Miaczynska, M.,Ashman, K.,Wilm, M.,Zhao, L. Y.,Yip, S. C.,Waterfield, M. D.,Backer, J. M.,Zerial, M.; (1999) 'Phosphatidylinositol-3-OH kinases are Rab5 effectors'. Nature Cell Biology, 1 (4):249-252. Available Online [Details]
Caspary, F.,Shevchenko, A.,Wilm, M.,Seraphin, B.; (1999) 'Partial purification of the yeast U2 snRNP reveals a novel yeast pre-mRNA splicing factor required for pre-spliceosome assembly'. Embo Journal, 18 (12):3463-3474. Available Online [Details]
Askjaer, P.,Bachi, A.,Wilm, M.,Bischoff, F. R.,Weeks, D. L.,Ogniewski, V.,Ohno, M.,Niehrs, C.,Kjems, J.,Mattaj, I. W.,Fornerod, M.; (1999) 'RanGTP-regulated interactions of CRM1 with nucleoporins and a shuttling DEAD-box helicase'. Molecular and Cellular Biology, 19 (9):6276-6285. Available Online [Details]
Achsel, T.,Brahms, H.,Kastner, B.,Bachi, A.,Wilm, M.,Luhrmann, R.; (1999) 'A doughnut-shaped heteromer of human Sm-like proteins binds to the 3 '-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro'. Embo Journal, 18 (20):5789-5802. Available Online [Details]
Wittmann, T.,Antony, C.,Bachi, A.,Wilm, M.,Vernos, I.,Karsenti, E.; (1998) 'Localization of Xklp2 to spindle poles: Identification of an interacting protein'. Molecular Biology of the Cell, 9 :396A-396A. Available Online [Details]
Mayans, O.,van der Ven, P. F. M.,Wilm, M.,Mues, A.,Young, P.,Furst, D. O.,Wilmanns, M.,Gautel, M.; (1998) 'Structural basis for activation of the titin kinase domain during myofibrillogenesis'. Nature, 395 (6705):863-869. Available Online [Details]
Gruter, P.,Tabernero, C.,von Kobbe, C.,Schmitt, C.,Saavedra, C.,Bachi, A.,Wilm, M.,Felber, B. K.,Izaurralde, E.; (1998) 'TAP, the human homolog of Mex67p, mediates CTE-dependent RNA export from the nucleus'. Molecular Cell, 1 (5):649-659. Available Online [Details]
Fornerod, M.,Ohno, M.,Bischoff, F. R.,Wilm, M.,Mattaj, I. W.; (1998) 'In vitro and in vivo interactions of the nuclear export receptor CRM1 exportin 1'. Molecular Biology of the Cell, 9 :133A-133A. Available Online [Details]
VargaWeisz, P. D.,Wilm, M.,Bonte, E.,Dumas, K.,Mann, M.,Becker, P. B.; (1997) 'Chromatin-remodelling factor CHRAC contains the ATPases ISWI and topoisomerase II'. Nature, 388 (6642):598-602. Available Online [Details]
Shevchenko, A.,Wilm, M.,Mann, M.; (1997) 'Peptide sequencing by mass spectrometry for homology searches and cloning of genes'. Journal of Protein Chemistry, 16 (5):481-490. Available Online [Details]
Ashman, K.,Houthaeve, T.,Clayton, J.,Wilm, M.,Podtelejnikov, A.,Jensen, O. N.,Mann, M.; (1997) 'The application of robotics and mass spectrometry to the characterisation of the Drosophila melanogaster indirect flight muscle proteome'. Letters in Peptide Science, 4 (2):57-65. Available Online [Details]
Deissler, H.,Wilm, M.,Genc, B.,Schmitz, B.,Ternes, T.,Naumann, F.,Mann, M.,Doerfler, W.; (1997) 'Rapid protein sequencing by tandem mass spectrometry and cDNA cloning of p20-CGGBP - A novel protein that binds to the unstable triplet repeat 5'-d(CGG)(n)-3' in the human FMR1 gene'. Journal of Biological Chemistry, 272 (27):16761-16768. Available Online [Details]
Grawunder, U.,Wilm, M.,Wu, X. T.,Kulesza, P.,Wilson, T. E.,Mann, M.,Lieber, M. R.; (1997) 'Activity of DNA ligase IV stimulated by complex formation with XRCC4 protein in mammalian cells'. Nature, 388 (6641):492-495. Available Online [Details]
Horiuchi, H.,Lippe, R.,McBride, H. M.,Rubino, M.,Woodman, P.,Stenmark, H.,Rybin, V.,Wilm, M.,Ashman, K.,Mann, M.,Zerial, M.; (1997) 'A novel Rab5 GDP/GTP exchange factor complexed to Rabaptin-5 links nucleotide exchange to effector recruitment and function'. Cell, 90 (6):1149-1159. Available Online [Details]
Olsson, S. L.,Ek, B.,Wilm, M.,Broberg, S.,Rask, L.,Bjork, I.; (1997) 'Molecular cloning and N-terminal analysis of bovine cystatin C identification of a full-length N-terminal region'. Biochimica Et Biophysica Acta-Protein Structure and Molecular Enzymology, 1343 (2):203-210. Available Online [Details]
Shevchenko, A.,Chernushevich, I.,Ens, W.,Standing, K. G.,Thomson, B.,Wilm, M.,Mann, M.; (1997) 'Rapid 'de novo' peptide sequencing by a combination of nanoelectrospray, isotopic labeling and a quadrupole/time-of-flight mass spectrometer'. Rapid Communications in Mass Spectrometry, 11 (9):1015-1024. Available Online [Details]
Schmidt, G.,Sehr, P.,Wilm, M.,Selzer, J.,Mann, M.,Aktories, K.; (1997) 'Gln 63 of Rho is deamidated by Escherichia coli cytotoxic necrotizing factor-1'. Nature, 387 (6634):725-729. Available Online [Details]
Ostareck, D. H.,OstareckLederer, A.,Wilm, M.,Thiele, B. J.,Mann, M.,Hentze, M. W.; (1997) 'mRNA silencing in erythroid differentiation: hnRNP K and hnRNP E1 regulate 15-lipoxygenase translation from the 3' end'. Cell, 89 (4):597-606. Available Online [Details]
Yu, H.,Li, X.,Marchetto, G. S.,Dy, R.,Hunter, D.,Calvo, B.,Dawson, T. L.,Wilm, M.,Anderegg, R. J.,Graves, L. M.,Earp, H. S.; (1996) 'Activation of a novel calcium-dependent protein-tyrosine kinase - Correlation with c-jun N-terminal kinase but not mitogen-activated protein kinase activation'. Journal of Biological Chemistry, 271 (47):29993-29998. Available Online [Details]
Wilm, M.,Shevchenko, A.,Houthaeve, T.,Breit, S.,Schweigerer, L.,Fotsis, T.,Mann, M.; (1996) 'Femtomole sequencing of proteins from polyacrylamide gels by nano-electrospray mass spectrometry'. Nature, 379 (6564):466-469. Available Online [Details]
Wilm, M.,Neubauer, G.,Mann, M.; (1996) 'Parent ion scans of unseparated peptide mixtures'. Analytical Chemistry, 68 (3):527-533. Available Online [Details]
Wilm, M.,Mann, M.; (1996) 'Analytical properties of the nanoelectrospray ion source'. Analytical Chemistry, 68 (1):1-8. Available Online [Details]
Shevchenko, A.,Wilm, M.,Vorm, O.,Mann, M.; (1996) 'Mass spectrometric sequencing of proteins from silver stained polyacrylamide gels'. Analytical Chemistry, 68 (5):850-858. Available Online [Details]
Shevchenko, A.,Wilm, M.,Vorm, O.,Jensen, O. N.,Podtelejnikov, A. V.,Neubauer, G.,Shevchenko, A.,Mortensen, P.,Mann, M.; (1996) 'A strategy for identifying gel-separated proteins in sequence databases by MS alone'. Biochemical Society Transactions, 24 (3):893-896. Available Online [Details]
Shevchenko, A.,Jensen, O. N.,Podtelejnikov, A. V.,Sagliocco, F.,Wilm, M.,Vorm, O.,Mortensen, P.,Shevchenko, A.,Boucherie, H.,Mann, M.; (1996) 'Linking genome and proteome by mass spectrometry: Large-scale identification of yeast proteins from two dimensional gels'. Proceedings of the National Academy of Sciences of the United States of America, 93 (25):14440-14445. Available Online [Details]
Selzer, J.,Hofmann, F.,Rex, G.,Wilm, M.,Mann, M.,Just, I.,Aktories, K.; (1996) 'Clostridium novyi alpha-toxin-catalyzed incorporation of GlcNAc into Rho subfamily proteins'. Journal of Biological Chemistry, 271 (41):25173-25177. Available Online [Details]
Korner, R.,Wilm, M.,Morand, K.,Schubert, M.,Mann, M.; (1996) 'Nano electrospray combined with a quadrupole ion trap for the analysis of peptides and protein digests'. Journal of the American Society for Mass Spectrometry, 7 (2):150-156. Available Online [Details]
Dale, V. C. M.,Speir, J. P.,Kruppa, G. H.,Stacey, C. C.,Mann, M.,Wilm, M.; (1996) 'Applications of sustained off-resonance irradiation (SORI) and quadrupolar excitation axialization (QEA) for the characterization of biomolecules by Fourier-transform mass spectrometry (FTMS)'. Biochemical Society Transactions, 24 (3):943-947. Available Online [Details]
Avino, A.,Garcia, R. G.,Albericio, F.,Mann, M.,Wilm, M.,Neubauer, G.,Eritja, R.; (1996) 'New carbamate supports for the preparation of 3'-amino-modified oligonucleotides'. Bioorganic & Medicinal Chemistry, 4 (10):1649-1658. Available Online [Details]
Mann, M.,Wilm, M.; (1995) 'ELECTROSPRAY MASS-SPECTROMETRY FOR PROTEIN CHARACTERIZATION'. Trends in Biochemical Sciences, 20 (6):219-224. Available Online [Details]
Just, I.,Selzer, J.,Wilm, M.,Voneichelstreiber, C.,Mann, M.,Aktories, K.; (1995) 'GLUCOSYLATION OF RHO-PROTEINS BY CLOSTRIDIUM-DIFFICILE TOXIN-B'. Nature, 375 (6531):500-503. Available Online [Details]
Acedo, M.,Tarrason, G.,Piulats, J.,Mann, M.,Wilm, M.,Eritja, R.; (1995) 'PREPARATION OF OLIGONUCLEOTIDE-DEXAMETHASONE CONJUGATES'. Bioorganic & Medicinal Chemistry Letters, 5 (15):1577-1580. Available Online [Details]
Mann, M.,Wilm, M.; (1994) 'ERROR TOLERANT IDENTIFICATION OF PEPTIDES IN SEQUENCE DATABASES BY PEPTIDE SEQUENCE TAGS'. Analytical Chemistry, 66 (24):4390-4399. Available Online [Details]
                                                                                             

Research

Research Interests

I am currently working on a computer programme that allows to extract quantity information from all mass spectrometric investigations - even by following a molecule over several chromatographic runs. 

The reason for this activity is that the important information of a mass spectrometric investigation in biological research is not any longer carried by the identity of a protein but by its quantitative trace. 

We are investigating the static and dynamic protein complexes of the ERBB network in the context of the European PRIMES project (Protein interaction machines in oncogenic EGF receptor signalling). Its ultimate aim is to understand the pathogenesis of colorectal cancer (see http://www.ucd.ie/sbi/research/areasofresearch/sbicollaborativeprojects/primesfp7). 

(Details see: http://web.mac.com/conway_mwilm/Bioanalytical_Research/Welcome.html)