Bioanalytical Research Group

List of Publications

Important Publications
1. Wilm, M. & Mann, M. (1994). Electrospray and Taylor-Cone Theory, Dole's Beam of Macromolecules at last ? International Journal of Mass Spectrometry and Ion Processes, 136, 167 -180
2. 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, 466-469
3. 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. Nat Biotechnol, 17, 10, 1030-2
4. 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. Nat Biotechnol, 21, 1, 89-92
5. Niggeweg, R., Köcher, T., Gentzel, M., Buscaino, A., Taipale, M., Akhtar, A., Wilm, M. (2005). A General Precursor-Ion-Like Scanning Mode on Quadrupole Time-of-Flight Instruments Compatible with Chromatographic Separation. Proteomics, 2006. 6(1): p. 41-53
1994
1. Mann, M. and Wilm, M., Error-Tolerant Identification of Peptides in Sequence Databases by Peptide Sequence Tags. Anal. Chem., 1994. 66(24): p. 4390-4399.
2. Wilm, M. and Mann, M., Electrospray and Taylor-Cone Theory, Dole's Beam of Macromolecules at last ? International Journal of Mass Spectrometry and Ion Processes, 1994. 136: p. 167 - 180.
3. Wilm, M., Kronholz, H.L., Schutz, J., and Koch, T., [The modification of programmable pacemakers by therapeutic irradiation]. Strahlenther Onkol, 1994. 170(4): p. 225-31.
4. Just, I., Wilm, M., Selzer, J., Rex, G., Eichel-Streiber, C.v., Mann, M., and Aktories, K., The Enterotoxin from Clostridium difficile (ToxA) Monoglucosylates the Rho Proteins. The Journal of Biological Chemistry, 1995. 270: p. 13932 - 13936.
1995
1. Just, I., Selzer, J., Wilm, M., Eichel-Streiber, C.v., Mann, M., and Aktories, K., Glucosylation of Rho Proteins by Clostridium difficile toxin B. Nature, 1995. 375: p. 500 - 503.
2. Mann, M. and Wilm, M., Electrospray Mass Spectrometry for Protein Characterization. Trends in Biological Science, 1995. 20: p. 219 - 224.
3. Wilm, M., Houthaeve, T., Talbo, G., Kellner, R., Mortensen, P., and Mann, M., Approaches to the Practical Use of MS/MS in a Protein Sequencing Facility, in Mass Spectrometry in the Biological Sciences, A.L. Burlingame and S.A. Carr, Editors. 1995, Humana Press: Clifton NJ. p. 245 - 265.

1996
1. Avino, A., Guimil Garcia, R., Albericio, F., Mann, M., Wilm, M., Neubauer, G., and Eritja, R., New carbamate supports for the preparation of 3'-amino-modified oligonucleotides. Bioorg Med Chem, 1996. 4(10): p. 1649-58.
2. Dale, V.C., Speir, J.P., Kruppa, G.H., Stacey, C.C., Mann, M., and Wilm, M., Applications of sustained off-resonance irradiation (SORI) and quadrupolar excitation axialization (QEA) for the characterization of biomolecules by Fourier-transform mass spectrometry (FTMS). Biochem Soc Trans, 1996. 24(3): p. 943-7.
3. Körner, R., Wilm, M., Morand, K., Schubert, M., and Mann, M., Nano Electrospray Combined with a Quadrupole Ion Trap for the Analysis of Peptides and Protein Digests. J. Am Soc Mass Spectrom, 1996. 7: p. 150 - 156.
4. Selzer, J., Hofmann, F., Rex, G., Wilm, M., Mann, M., Just, I., and Aktories, K., Clostridium novyi alpha-toxin-catalyzed incorporation of GlcNAc into Rho subfamily proteins. J Biol Chem, 1996. 271(41): p. 25173-7.
5. Shevchenko, A., Wilm, M., Vorm, O., and Mann, M., Mass spectrometric sequencing of proteins from silver stained polyacrylamide gels. Anal. Chem., 1996. 68(5): p. 850-858.
6. Shevchenko, A., Wilm, M., Vorm, O., Jensen, O.N., Podtelejnikov, A.V., Neubauer, G., Shevchenko, A., Mortensen, P., and Mann, M., A Strategy for Identifying Gel-Separated Proteins in Sequence Databases by Mass Spectrometry Alone. Biochemical Society Transactions, 1996. 24: p. 893 - 896.
7. Shevchenko, A., Jensen, O.N., Podtelejnikov, A.V., Sagliocco, F., Wilm, M., Vorm, O., Mortensen, P., Shevchenko, A., Boucherie, H., and Mann, M., Linking genome and proteome by mass spectrometry: Large-scale identification of yeast proteins from two dimensional gels. Proc. Natl. Acad. Sci., 1996. 93: p. 14440 - 14445.
8. Wilm, M., Shevchenko, A., Houthaeve, T., Breit, S., Schweigerer, L., Fotsis, T., and Mann, M., Femtomole Sequencing of Proteins from Polyacrylamide Gels by Nano-Electrospray Mass Spectrometry. Nature, 1996. 379: p. 466-469.
9. Wilm, M. and Mann, M., Analytical Properties of the Nanoelectrospray Ion Source. Anal. Chem., 1996. 68(1): p. 1-8.
10. Wilm, M., Neubauer, G. and Mann, M., Parent ion scans of unseparated peptide mixtures. Anal Chem, 1996. 68(3): p. 527-33.
11. Yu, H., Li, X., Marchetto, G.S., Dy, R., Hunter, D., Calvo, B., Dawson, T.L., Wilm, M., Anderegg, R.J., Graves, L.M., and Earp, H.S., Activation of a novel calcium-dependent protein-tyrosine kinase. Correlation with c-Jun N-terminal kinase but not mitogen-activated protein kinase activation. J Biol Chem, 1996. 271(47): p. 29993-8.

1997
1. Ashman, K., Houthaeve, T., Clayton, J., Wilm, M., Podteleynikov, A., Jensen, O.N., and Mann, M., The Application of Robotics and Mass Spectrometry to the Characterisation of the Drosophila melanogaster Indirect Flight Muscle Proteome. Letters in Peptide Science, 1997. 4: p. 57 - 65.
2. Deissler, H., Wilm, M., Genc, B., Schmitz, B., Ternes, T., Naumann, F., Mann, M., and Doerfler, W., Rapid Protein Sequencing by Tandem Mass Spectrometry and cDNA Cloning of p20-CGGBP. Journal of Biological Chemistry, 1997. 272(27): p. 16761-16768.
3. Grawunder, U., Wilm, M., Wu, X., Kulesza, P., Wilson, T.E., Mann, M., and Lieber, M.R., Activity of DNA ligase IV stimulated by complex formation with XRCC4 protein in mammalian cells. Nature, 1997. 388: p. 492 - 495.
4. Horiuchi, H., Lippe, R., McBride, H., Rubino, M., Woodman, P., Stenmark, H., Rybin, V., Wilm, M., Ashman, K., Mann, M., and Zerial, M., A novel Rab5 GDP/GTP exchange factor complexed to Rabaptin5 links nucleotide exchange to effector recruitment and function. Cell, 1997. 90: p. 1149 - 1159.
5. Olsson, S.L., Ek, B., Wilm, M., Broberg, S., Rask, L., and Björk, I., Molecular cloning and N-terminal analysis of bovine cystatin C identification of a full-length N-terminal region. Biochimica et Biophysica Acta, 1997. 1343: p. 203 - 210.
6. Ostareck, D.H., Ostareck-Lederer, A., Wilm, M., Thiel, B.J., Mann, M., and Hentze, M.W., mRNA Silencing in Erythroid Differentiation: hnRNP K and hnRNP E1 Regulate 15-Lipoxygenase Translation from the 3' End. Cell, 1997. 89: p. 597 - 606.
7. Schmidt, G., Sehr, P., Wilm, M., Selzer, J., Mann, M., and Aktories, K., Gln 63 of Rho is deamidated by Escherichia coli cytotoxic necrotizing factor-1. Nature, 1997. 387: p. 725-728.
8. Shevchenko, A., Chernushevich, I., Ens, W., Standing, K.G., Thomson, B., Wilm, M., and Mann, M., 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, 1997. 11(9): p. 1015 - 1024.
9. Shevchenko, A., Wilm, M. and Mann, M., Peptide Sequencing by Mass Spectrometry for Homology Searches and Cloning of Genes. Journal of Protein Chemistry, 1997. 16(5): p. 481 - 489.
10. Varga-Weisz, P.D., Wilm, M., Bonte, E., Dumas, K., Mann, M., and Becker, P.B., Chromatin-remodelling factor CHRAC contains the ATPases ISWI and topoisomerase II. Nature, 1997. 388: p. 598 - 602.

1998
1. Grüter, P., Tabernero, C., Kobbe, C.v., Schmitt, C., Saavedra, C., Bachi, A., Wilm, M., Felber, B.K., and Izaurralde, E., TAP, the human homolog to Mex67p, mediates CTE-dependent RNA export form the nucleus. Molecular Cell, 1998. 1: p. 649 - 659.
2. Mayans, O., Ven, P.F.M.v.d., Wilm, M., Mues, A., Young, P., Fürst, D.O., Wilmanns, M., and Gautel, M., Structural basis for the
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1999
1. Achsel, T., Brahms, H., Kastner, B., Bachi, A., Wilm, M., and Luhrmann, R., A doughnut-shaped hetero-mer of human Sm-like proteins binds to the 3'- end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro. Embo J, 1999. 18(20): p. 5789-802.
2. Askjaer, P., Bachi, A., Wilm, M., Bischoff, F.R., Weeks, D.L., Ogniewski, V., Ohno, M., Niehrs, C., Kjems, J., Mattaj, I.W., and Fornerod, M., RanGTP-regulated interactions of CRM1 with nucleoporins and a shuttling DEAD-box helicase. Mol Cell Biol, 1999. 19(9): p. 6276-85.
3. Caspary, F., Shevchenko, A., Wilm, M., and Seraphin, B., Partial purification of the yeast U2 snRNP reveals a novel yeast pre- mRNA splicing factor required for pre-spliceosome assembly. Embo J, 1999. 18(12): p. 3463-74.
4. Christoforidis, S., Miaczynska, M., Ashman, K., Wilm, M., Zhao, L., Yip, S.C., Waterfield, M.D., Backer, J.M., and Zerial, M., Phosphatidylinositol-3-OH kinases are Rab5 effectors. Nat Cell Biol, 1999. 1(4): p. 249-52.
5. Cross, M., Kieft, R., Sabatini, R., Wilm, M., de Kort, M., van der Marel, G.A., van Boom, J.H., van Leeuwen, F., and Borst, P., The modified base J is the target for a novel DNA-binding protein in kinetoplastid protozoans. Embo J, 1999. 18(22): p. 6573-81.
6. Geier, E., Pfeifer, G., Wilm, M., Lucchiari-Hartz, M., Baumeister, W., Eichmann, K., and Niedermann, G., A Giant Protease with Potential to Substitute for Some Functions of the Proteasome. Science, 1999. 283: p. 978 - 981.
7. Harada, H., Becknell, B., Wilm, M., Mann, M., Huang, L.J., Taylor, S.S., Scott, J.D., and Korsmeyer, S.J., Phosphorylation and inactivation of BAD by mitochondria-anchored protein kinase A. Mol Cell, 1999. 3(4): p. 413-22.
8. Jensen, O.N., Wilm, M., Shevchenko, A., and Mann, M., Peptide sequencing of 2-DE gel-isolated proteins by nanoelectrospray tandem mass spectrometry. Methods Mol Biol, 1999. 112: p. 571-88.
9. Jensen, O.N., Wilm, M., Shevchenko, A., and Mann, M., Sample preparation methods for mass spectrometric peptide mapping directly from 2-DE gels. Methods Mol Biol, 1999. 112: p. 513-30.
10. Rigaut, G., Shevchenko, A., Rutz, B., Wilm, M., Mann, M., and Seraphin, B., A generic protein purification method for protein complex characterization and proteome exploration. Nat Biotechnol, 1999. 17(10): p. 1030-2.
11. Schmitt, C., von Kobbe, C., Bachi, A., Pante, N., Rodrigues, J.P., Boscheron, C., Rigaut, G., Wilm, M., Seraphin, B., Carmo-Fonseca, M., and Izaurralde, E., 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 J, 1999. 18(15): p. 4332-47.
12. Schrotz-King, P., Wilm, M., Andersen, J.S., Ashman, K., Podtelejnikov, A.V., Bachi, A., King, A., and Mann, M., Use of mass spectrometric methods for protein identification in receptor research. J Recept Signal Transduct Res, 1999. 19(1-4): p. 659-72.
13. Zech, B., Wilm, M., van Eldik, R., and Brune, B., Mass spectrometric analysis of nitric oxide-modified caspase-3. J Biol Chem, 1999. 274(30): p. 20931-6.

2000
1. Bachi, A., Braun, I.C., Rodrigues, J.P., Pante, N., Ribbeck, K., von Kobbe, C., Kutay, U., Wilm, M., Gorlich, D., Carmo-Fonseca, M., and Izaurralde, E., The C-terminal domain of TAP interacts with the nuclear pore complex and promotes export of specific CTE-bearing RNA substrates [In Process Citation]. Rna, 2000. 6(1): p. 136-58.
2. Lange, B.M., Bachi, A., Wilm, M., and Gonzalez, C., Hsp90 is a core centrosomal component and is required at different stages of the centrosome cycle in Drosophila and vertebrates. Embo J, 2000. 19(6): p. 1252-62.
3. Bouveret, E., Rigaut, G., Shevchenko, A., Wilm, M., and Seraphin, B., A Sm-like protein complex that participates in mRNA degradation. Embo J, 2000. 19(7): p. 1661-1671.
4. Corona, D.F., Eberharter, A., Budde, A., Deuring, R., Ferrari, S., Varga-Weisz, P., Wilm, M., Tamkun, J., and Becker, P.B., Two histone fold proteins, CHRAC-14 and CHRAC-16, are developmentally regulated subunits of chromatin accessibility complex (CHRAC). Embo J, 2000. 19(12): p. 3049-59.
5. Nielsen, E., Christoforidis, S., Uttenweiler-Joseph, S., Miaczynska, M., Dewitte, F., Wilm, M., Hoflack, B., and Zerial, M., Rabenosyn-5, a novel Rab5 effector, is complexed with hVPS45 and recruited to endosomes through a FYVE finger domain. J Cell Biol, 2000. 151(3): p. 601-12.
6. Ohno, M., Segref, A., Bachi, A., Wilm, M., and Mattaj, I.W., PHAX, a mediator of U snRNA nuclear export whose activity is regulated by phosphorylation. Cell, 2000. 101(2): p. 187-98.
7. Schlossmann, J., Ammendola, A., Ashman, K., Zong, X., Huber, A., Neubauer, G., Wang, G.X., All-escher, H.D., Korth, M., Wilm, M., Hofmann, F., and Ruth, P., Regulation of intracellular calcium by a signalling complex of IRAG, IP3 receptor and cGMP kinase Ibeta. Nature, 2000. 404(6774): p. 197-201.
8. Shevchenko, A., Chernushevich, I., Wilm, M., and Mann, M., De Novo peptide sequencing by nanoelectrospray tandem mass spectrometry using triple quadrupole and quadrupole/time-of-flight instruments. Methods Mol Biol, 2000. 146: p. 1-16.
9. Stutz, F., Bachi, A., Doerks, T., Braun, I.C., Seraphin, B., Wilm, M., Bork, P., and Izaurralde, E., REF, an evolutionary conserved family of hnRNP-like proteins, interacts with TAP/Mex67p and participates in mRNA nuclear export. RNA, 2000. 6(4): p. 638-50.
10. von Kobbe, C., van Deursen, J.M., Rodrigues, J.P., Sitterlin, D., Bachi, A., Wu, X., Wilm, M., Carmo-Fonseca, M., and Izaurralde, E., Vesicular stomatitis virus matrix protein inhibits host cell gene expression by targeting the nucleoporin nup98. Mol Cell, 2000. 6(5): p. 1243-52.
11. Watkins, N.J., Segault, V., Charpentier, B., Nottrott, S., Fabrizio, P., Bachi, A., Wilm, M., Rosbash, M., Branlant, C., and Luhrmann, R., A common core RNP structure shared between the small nucleoar box C/D RNPs and the spliceosomal U4 snRNP. Cell, 2000. 103(3): p. 457-66.
12. Watty, A., Neubauer, G., Dreger, M., Zimmer, M., Wilm, M., and Burden, S.J., The in vitro and in vivo phosphotyrosine map of activated MuSK. Proc Natl Acad Sci U S A, 2000. 97(9): p. 4585-90.
13. Wilm, M., Mass spectrometric analysis of proteins. Adv Protein Chem, 2000. 54: p. 1-30.
14. Wittmann, T., Wilm, M., Karsenti, E., and Vernos, I., TPX2, A novel xenopus MAP involved in spindle pole organization. J Cell Biol, 2000. 149(7): p. 1405-18.

2001
1. Dorey, K., Engen, J.R., Kretzschmar, J., Wilm, M., Neubauer, G., Schindler, T., and Superti-Furga, G., Phosphorylation and structure-based functional studies reveal a positive and a negative role for the activation loop of the c-Abl tyrosine kinase. Oncogene, 2001. 20(56): p. 8075-84.
2. Eberharter, A., Ferrari, S., Langst, G., Straub, T., Imhof, A., Varga-Weisz, P., Wilm, M., and Becker, P.B., Acf1, the largest subunit of CHRAC, regulates ISWI-induced nucleosome remodelling. Embo J, 2001. 20(14): p. 3781-8.
3. Gatfield, D., Le Hir, H., Schmitt, C., Braun, I.C., Kocher, T., Wilm, M., and Izaurralde, E., The DExH/D box protein HEL/UAP56 is essential for mRNA nuclear export in Drosophila. Curr Biol, 2001. 11(21): p. 1716-21.
4. Gruss, O.J., Carazo-Salas, R.E., Schatz, C.A., Guarguaglini, G., Kast, J., Wilm, M., Le Bot, N., Vernos, I., Karsenti, E., and Mattaj, I.W., Ran induces spindle assembly by reversing the inhibitory effect of importin alpha on TPX2 activity. Cell, 2001. 104(1): p. 83-93.
5. Pijnappel, W.W., Schaft, D., Roguev, A., Shevchenko, A., Tekotte, H., Wilm, M., Rigaut, G., Seraphin, B., Aasland, R., and Stewart, A.F., The S. cerevisiae SET3 complex includes two histone deacetylases, Hos2 and Hst1, and is a meiotic-specific repressor of the sporulation gene program. Genes Dev, 2001. 15(22): p. 2991-3004.
6. Prokhortchouk, A., Hendrich, B., Jorgensen, H., Ruzov, A., Wilm, M., Georgiev, G., Bird, A., and Prokhortchouk, E., The p120 catenin partner Kaiso is a DNA methylation-dependent transcriptional repressor. Genes Dev, 2001. 15(13): p. 1613-8.
7. Puig, O., Caspary, F., Rigaut, G., Rutz, B., Bouveret, E., Bragado-Nilsson, E., Wilm, M., and Seraphin, B., The tandem affinity purification (tap) method: a general procedure of protein complex purification. Methods, 2001. 24(3): p. 218-29.
8. Roguev, A., Schaft, D., Shevchenko, A., Pijnappel, W.W., Wilm, M., Aasland, R., and Stewart, A.F., The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue and methylates histone 3 lysine 4. Embo J, 2001. 20(24): p. 7137-48.
9. Schmidt, G., Goehring, U.M., Schirmer, J., Uttenweiler-Joseph, S., Wilm, M., Lohmann, M., Giese, A., Schmalzing, G., and Aktories, K., Lysine and polyamines are substrates for transglutamination of rho by the Bordetella dermonecrotic toxin. Infect Immun, 2001. 69(12): p. 7663-70.
10. Uttenweiler-Joseph, S., Neubauer, G., Christoforidis, S., Zerial, M., and Wilm, M., Automated de novo sequencing of proteins using the differential scanning technique. Proteomics, 2001. 1(5): p. 668-682.
11. Will, C.L., Schneider, C., MacMillan, A.M., Katopodis, N.F., Neubauer, G., Wilm, M., Luhrmann, R., and Query, C.C., A novel U2 and U11/U12 snRNP protein that associates with the pre-mRNA branch site. Embo J, 2001. 20(16): p. 4536-46.
2002
1. Blandin, S., Moita, L.F., Kocher, T., Wilm, M., Kafatos, F.C., and Levashina, E.A., Reverse genetics in the mosquito Anopheles gambiae: targeted disruption of the Defensin gene. EMBO Rep, 2002. 3(9): p. 852-6.
2. Gentzel, M., Kocher, T. and Wilm, M., Proteomics in biological research: the challenge to make proteins speak. Ernst Schering Res Found Workshop, 2002. 38: p. 167-89.
3. Hartmuth, K., Urlaub, H., Vornlocher, H.P., Will, C.L., Gentzel, M., Wilm, M., and Luhrmann, R., Protein composition of human prespliceosomes isolated by a tobramycin affinity-selection method. Proc Natl Acad Sci U S A, 2002. 99(26): p. 16719-24.
4. Makarov, E.M., Makarova, O.V., Urlaub, H., Gentzel, M., Will, C.L., Wilm, M., and Luhrmann, R., Small Nuclear Ribonucleoprotein Remodeling During Catalytic Activation of the Spliceosome. Science, 2002. 31: p. 31.
5. Shevchenko, A., Chernushevic, I., Wilm, M., and Mann, M., "De novo" sequencing of peptides recovered from in-gel digested proteins by nanoelectrospray tandem mass spectrometry. Mol Biotechnol, 2002. 20(1): p. 107-18.
6. Stemmann, O., Neidig, A., Kocher, T., Wilm, M., and Lechner, J., Hsp90 enables Ctf13p/Skp1p to nucleate the budding yeast kinetochore. Proc Natl Acad Sci U S A, 2002. 99(13): p. 8585-90.
7. Westermarck, J., Weiss, C., Saffrich, R., Kast, J., Musti, A.M., Wessely, M., Ansorge, W., Seraphin, B., Wilm, M., Valdez, B.C., and Bohmann, D., The DEXD/H-box RNA helicase RHII/Gu is a co-factor for c-Jun-activated transcription. Embo J, 2002. 21(3): p. 451-60.
8. Will, C.L., Urlaub, H., Achsel, T., Gentzel, M., Wilm, M., and Luhrmann, R., Characterization of novel SF3b and 17S U2 snRNP proteins, including a human Prp5p homologue and an SF3b DEAD-box protein. Embo J, 2002. 21(18): p. 4978-88.

2003
1. Buscaino, A., Kocher, T., Kind, J.H., Holz, H., Taipale, M., Wagner, K., Wilm, M., and Akhtar, A., MOF-Regulated Acetylation of MSL-3 in the Drosophila Dosage Compensation Complex. Mol Cell, 2003. 11(5): p. 1265-77.
2. Forler, D., Kocher, T., Rode, M., Gentzel, M., Izaurralde, E., and Wilm, M., An efficient protein complex purification method for functional proteomics in higher eukaryotes. Nat Biotechnol, 2003. 21(1): p. 8992.
3. Gentzel, M., Kocher, T., Ponnusamy, S., and Wilm, M., Preprocessing of tandem mass spectrometric data to support automatic protein identification. Proteomics, 2003. 3(8): p. 1597-610.
4. Kast, J., Parker, C.E., van der Drift, K., Dial, J.M., Milgram, S.L., Wilm, M., Howell, M., and Borchers, C.H., Matrix-assisted laser desorption/ionization directed nano-electrospray ionization tandem mass spectrometric analysis for protein identification. Rapid Commun Mass Spectrom, 2003. 17(16): p. 182534.
5. Kast, J., Gentzel, M., Richardson, K. and Wilm, M.,Noise filtering techniques for electrospray quadrupole time of flight mass spectra. J Am Soc Mass Spectrom, 2003. 14(7): p. 766-76.
6. Kocher, T., Allmaier, G. and Wilm, M., Nanoelectrospray-based detection and sequencing of substoichiometric amounts of phosphopeptides in complex mixtures. J Mass Spectrom, 2003. 38(2): p. 131-7.
7. Ledesma, M.D., Da Silva, J.S., Schevchenko, A., Wilm, M., and Dotti, C.G., Proteomic characterisation of neuronal sphingolipid-cholesterol microdomains: role in plasminogen activation. Brain Res, 2003. 987(1): p. 107-16.
8. Ortega, A., Niksic, M., Bachi, A., Wilm, M., Sanchez, L., Hastie, N., and Valcarcel, J., Biochemical function of female-lethal (2)D/Wilms' tumor suppressor-1-associated proteins in alternative pre-mRNA splicing. J Biol Chem, 2003. 278(5): p. 3040-7.
9. Schambony, A., Hefele, J.A., Gentzel, M., Wilm, M., and Wedlich, D., A homologue of cysteine-rich secretory proteins induces premature degradation of vitelline envelopes and hatching of Xenopus laevis embryos. Mech Dev, 2003. 120(8): p. 937-48.
10. Schell, T., Kocher, T., Wilm, M., Seraphin, B., Kulozik, A.E., and Hentze, M.W., 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. Biochem J, 2003. 373(Pt 3): p. 775-83.
11. Walther, T.C., Alves, A., Pickersgill, H., Loiodice, I., Hetzer, M., Galy, V., Hulsmann, B.B., Kocher, T., Wilm, M., Allen, T., Mattaj, I.W., and Doye, V., The conserved Nup107-160 complex is critical for nuclear pore complex assembly. Cell, 2003. 113(2): p. 195-206.
12. Walther, T.C., Askjaer, P., Gentzel, M., Habermann, A., Griffiths, G., Wilm, M., Mattaj, I.W., and Hetzer, M., RanGTP mediates nuclear pore complex assembly. Nature, 2003. 424(6949): p. 689-94.

2004
1. Hachet, V., T. Kocher, M. Wilm, and I.W. Mattaj, Importin alpha associates with membranes and participates in nuclear envelope assembly in vitro. Embo J, 2004. 23(7): p. 1526-35.
2. Schnatwinkel, C., S. Christoforidis, M.R. Lindsay, S. Uttenweiler-Joseph, M. Wilm, R.G. Parton, and M. Zerial, The rab5 effector rabankyrin-5 regulates and coordinates different endocytic mechanisms. PLoS Biol, 2004. 2(9): p. E261.
3. Fethiere, J., D. Venzke, M. Diepholz, A. Seybert, A. Geerlof, M. Gentzel, M. Wilm, and B. Bottcher, Building the stator of the yeast vacuolar-ATPase: specific interaction between subunits E and G. J Biol Chem, 2004. 279(39): p. 40670-6.
4. Makarova, O.V., E.M. Makarov, H. Urlaub, C.L. Will, M. Gentzel, M. Wilm, and R. Luhrmann, A subset of human 35S U5 proteins, including Prp19, function prior to catalytic step 1 of splicing. Embo J, 2004. 23(12): p. 2381-91.
5. Rehwinkel, J., A. Herold, K. Gari, T. Kocher, M. Rode, F.L. Ciccarelli, M. Wilm, and E. Izaurralde, Geno-me-wide analysis of mRNAs regulated by the THO complex in Drosophila melanogaster. Nat Struct Mol Biol, 2004. 11(6): p. 558-66.
2005
1. Miaczynska, M., S. Christoforidis, A. Giner, A. Shevchenko, S. Uttenweiler-Joseph, B. Habermann, M. Wilm, R.G. Parton, and M. Zerial, APPL proteins link Rab5 to nuclear signal transduction via an endosomal compartment. Cell, 2004. 116(3): p. 445-56.
2. Franz, C., P. Askjaer, W. Antonin, C.L. Iglesias, U. Haselmann, M. Schelder, A. de Marco, M. Wilm, C. Antony, and I.W. Mattaj, Nup155 regulates nuclear envelope and nuclear pore complex formation in nematodes and vertebrates. Embo J, 2005. 24(20): p. 3519-31.
3. Shin, H.W., M. Hayashi, S. Christoforidis, S. Lacas-Gervais, S. Hoepfner, M.R. Wenk, J. Modregger, S. Uttenweiler-Joseph, M. Wilm, A. Nystuen, W.N. Frankel, M. Solimena, P. De Camilli, and M. Zerial, An enzymatic cascade of Rab5 effectors regulates phosphoinositide turnover in the endocytic pathway. J Cell Biol, 2005. 170(4): p. 607-18.
4. Li, X., M. Wilm, and T. Franz, 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, 2005. 5(6): p. 1460-71.
5. Czaplinski, K., T. Kocher, M. Schelder, A. Segref, M. Wilm, and I.W. Mattaj, Identification of 40LoVe, a Xenopus hnRNP D family protein involved in localizing a TGF-beta-related mRNA during oogenesis. Dev Cell, 2005. 8(4): p. 505-15.
2006
1. Belyi, Y., R. Niggeweg, B. Opitz, M. Vogelsgesang, S. Hippenstiel, M. Wilm, and K. Aktories, Legionella pneumophila glucosyltransferase inhibits host elongation factor 1A. Proc Natl Acad Sci U S A, 2006. 103(45): p. 16953-8.
2. Ribbeck, K., A.C. Groen, R. Santarella, M.T. Bohnsack, T. Raemaekers, T. Kocher, M. Gentzel, D. Gorlich, M. Wilm, G. Carmeliet, T.J. Mitchison, J. Ellenberg, A. Hoenger, and I.W. Mattaj, NuSAP, a mitotic RanGTP target that stabilizes and cross-links microtubules. Mol Biol Cell, 2006. 17(6): p. 2646-60.
3. Niggeweg, R., T. Kocher, M. Gentzel, A. Buscaino, M. Taipale, A. Akhtar, and M. Wilm, A general precursor ion-like scanning mode on quadrupole-TOF instruments compatible with chromatographic separation. Proteomics, 2006. 6(1): p. 41-53.
4. Mendjan, S., M. Taipale, J. Kind, H. Holz, P. Gebhardt, M. Schelder, M. Vermeulen, A. Buscaino, K. Duncan, J. Mueller, M. Wilm, H.G. Stunnenberg, H. Saumweber, and A. Akhtar, Nuclear pore components are involved in the transcriptional regulation of dosage compensation in Drosophila. Mol Cell, 2006. 21(6): p. 811-23.
5. Koffa, M.D., C.M. Casanova, R. Santarella, T. Kocher, M. Wilm, and I.W. Mattaj, HURP is part of a Ran-dependent complex involved in spindle formation. Curr Biol, 2006. 16(8): p. 743-54.
6. Klymenko, T., B. Papp, W. Fischle, T. Kocher, M. Schelder, C. Fritsch, B. Wild, M. Wilm, and J. Muller, A Polycomb group protein complex with sequence-specific DNA-binding and selective methyl-lysine-binding activities. Genes Dev, 2006. 20(9): p. 1110-22.
7. Duncan, K., M. Grskovic, C. Strein, K. Beckmann, R. Niggeweg, I. Abaza, F. Gebauer, M. Wilm, and M.W. Hentze, 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 Dev, 2006. 20(3): p. 368-79.
2007
1. Fraterman, S., U. Zeiger, T.S. Khurana, M. Wilm, and N.A. Rubinstein, Quantitative proteomic profiling of sarcomere associated proteins in limb and extraocular muscle allotypes. Mol Cell Proteomics, 2007.
2. Wabnitz, G.H., T. Kocher, P. Lohneis, C. Stober, M.H. Konstandin, B. Funk, U. Sester, M. Wilm, M. Klemke, and Y. Samstag, Costimulation induced phosphorylation of L-plastin facilitates surface transport of the T cell activation molecules CD69 and CD25. Eur J Immunol, 2007. 37(3): p. 649-62.
3. Roukos, V., M.S. Iliou, H. Nishitani, M. Gentzel, M. Wilm, S. Taraviras, and Z. Lygerou, Geminin cleavage during apoptosis by caspase-3 alters its binding ability to the SWI/SNF subunit Brahma. J Biol Chem, 2007.
4. Welti, S., S. Fraterman, I. D'Angelo, M. Wilm, and K. Scheffzek, The sec14 homology module of neurofibromin binds cellular glycerophospholipids: mass spectrometry and structure of a lipid complex. J Mol Biol, 2007. 366(2): p. 551-62.
5. Antl, M., M.L. von Bruhl, C. Eiglsperger, M. Werner, I. Konrad, T. Kocher, M. Wilm, F. Hofmann, S. Massberg, and J. Schlossmann, IRAG mediates NO/cGMP-dependent inhibition of platelet aggregation and thrombus formation. Blood, 2007. 109(2): p. 552-9.
6. Danckwardt, S., I. Kaufmann, M. Gentzel, K.U. Foerstner, A.S. Gantzert, N.H. Gehring, G. Neu-Yilik, P. Bork, W. Keller, M. Wilm, M.W. Hentze, and A.E. Kulozik, Splicing factors stimulate polyadenylation via USEs at non-canonical 3' end formation signals. Embo J, 2007. 26(11): p. 2658-69.
7. Nekrasov, M., T. Klymenko, S. Fraterman, B. Papp, K. Oktaba, T. Kocher, A. Cohen, H.G. Stunnenberg, M. Wilm, and J. Muller, Pcl-PRC2 is needed to generate high levels of H3-K27 trimethylation at Polycomb target genes. Embo J, 2007. 26(18): p. 4078-88.
8. Fraterman, S., U. Zeiger, T.S. Khurana, N.A. Rubinstein, and M. Wilm, Combination of peptide OFFGEL fractionation and label-free quantitation facilitated proteomics profiling of extraocular muscle. Proteomics, 2007. 7(18): p. 3404-16.
2008
1. Kitao, S., A. Segref, J. Kast, M. Wilm, I.W. Mattaj, and M. Ohno, A compartmentalized phosphorylation/dephosphorylation system that regulates U snRNA export from the nucleus. Mol Cell Biol, 2008. 28(1): p. 487-97.