Matthew

Matthew Betts

  • (Russell lab alumnus)
  • Senior Bioinformatics Scientist (Protein Bioinformatics)
  • matthew.betts@molecularhealth.com
  • Molecular Health GmbH

History

2010-2017Bioinformatics Research and Support ScientistRussell Group (Protein Evolution), CellNetworks Excellenz Cluster, University of Heidelberg, Germany
2006-2010Computational BiologistRussell Group (Structural Bioinformatics), EMBL, Heidelberg, Germany
2005-2006PostdocRussell Group (Structural Bioinformatics), EMBL, Heidelberg, Germany
2003-2005PostdocLiberles Group, CBU, BCCS, UNIFOB / UiB, Bergen, Norway
2001-2003Research ScientistBioinformatics, deCODE Genetics, Iceland
2000ContractorBioinformatics, SmithKline Beecham, UK (supervisor: Rob Russell)
1998-2000Research AssistantMRC LMB, Cambridge, UK (supervisor: Rodger Staden)
1999PhDAnalysis and Prediction of Protein-Protein Docking, ICRF, London, UK (supervisor: Mike Sternberg)
1994MScComputer Modelling of Molecular and Biological Processes, Birkbeck College, London, UK
1993BSc (Hons)Chemistry, York University, UK

Technical skills, etc.

Perl, MySQL, C, Apache, Linux, ...

Poster design:

images/HUB26.png images/HUB25.png images/HUB24.png symposium 2016 images/HUB23.png images/HUB22.png symposium 2015 images/HUB20.png images/HUB19.5.png images/HUB19.png images/HUB15.png images/HUB14.png images/HUB12.png images/HUB_ISMB2013.png

Refereed Articles

  1. Betts MJ, Wichmann O, Utz M, Andre T, Petsalaki E, Minguez P, Parca L, Roth FP, Gavin AC, Bork P, Russell RB, 'Systematic identification of phosphorylation-mediated protein interaction switches.', PLoS Comput Biol. 2017 Mar 27;13(3):e1005462. doi: 10.1371/journal.pcbi.1005462.
  2. Raimondi F, Singh G, Betts MJ, Apic G, Vukotic R, Andreone P, Stein L, Russell RB, 'Insights into cancer severity from biomolecular interaction mechanisms.', Sci Rep. 2016 Oct 4;6:34490. doi: 10.1038/srep34490.
  3. Liu Y, Betts MJ, Lei J, Wei G, Bao Q, Kehl T, Russell RB, Lochelt M, 'Mutagenesis of N-terminal residues of feline foamy virus Gag reveals entirely budding.', Retrovirology. 2016 Aug 22;13(1):57. doi: 10.1186/s12977-016-0291-8.
  4. Boldt K, van Reeuwijk J, Lu Q, Koutroumpas K, Nguyen TM, Texier Y, van Beersum SE, Horn N, Willer JR, Mans DA, Dougherty G, Lamers IJ, Coene KL, Arts HH, Betts MJ, Beyer T, Bolat E, Gloeckner CJ, Haidari K, Hetterschijt L, Iaconis D, Jenkins D, Klose F, Knapp B, Latour B, Letteboer SJ, Marcelis CL, Mitic D, Morleo M, Oud MM, Riemersma M, Rix S, Terhal PA, Toedt G, van Dam TJ, de Vrieze E, Wissinger Y, Wu KM, Apic G, Beales PL, Blacque OE, Gibson TJ, Huynen MA, Katsanis N, Kremer H, Omran H, van Wijk E, Wolfrum U, Kepes F, Davis EE, Franco B, Giles RH, Ueffing M, Russell RB, Roepman R, 'An organelle-specific protein landscape identifies novel diseases and molecular mechanisms.', Nat Commun. 2016 May 13;7:11491. doi: 10.1038/ncomms11491.
  5. Lopez C, Bergmann AK, Paul U, Murga Penas EM, Nagel I, Betts MJ, Johansson P, Ritgen M, Baumann T, Aymerich M, Jayne S, Russell RB, Campo E, Dyer MJ, Durig J, Siebert R, 'Genes encoding members of the JAK-STAT pathway or epigenetic regulators are recurrently mutated in T-cell prolymphocytic leukaemia.', Br J Haematol. 2016 Apr;173(2):265-73. doi: 10.1111/bjh.13952. Epub 2016 Feb 25.
  6. Kretzmer H, Bernhart SH, Wang W, Haake A, Weniger MA, Bergmann AK, Betts MJ, Carrillo-de-Santa-Pau E, Doose G, Gutwein J, Richter J, Hovestadt V, Huang B, Rico D, Juhling F, Kolarova J, Lu Q, Otto C, Wagener R, Arnolds J, Burkhardt B, Claviez A, Drexler HG, Eberth S, Eils R, Flicek P, Haas S, Hummel M, Karsch D, Kerstens HH, Klapper W, Kreuz M, Lawerenz C, Lenze D, Loeffler M, Lopez C, MacLeod RA, Martens JH, Kulis M, Martin-Subero JI, Moller P, Nagel I, Picelli S, Vater I, Rohde M, Rosenstiel P, Rosolowski M, Russell RB, Schilhabel M, Schlesner M, Stadler PF, Szczepanowski M, Trumper L, Stunnenberg HG, Kuppers R, Ammerpohl O, Lichter P, Siebert R, Hoffmann S, Radlwimmer B, 'DNA methylome analysis in Burkitt and follicular lymphomas identifies control.', Nat Genet. 2015 Nov;47(11):1316-25. doi: 10.1038/ng.3413. Epub 2015 Oct 5.
  7. Wagener R, Aukema SM, Schlesner M, Haake A, Burkhardt B, Claviez A, Drexler HG, Hummel M, Kreuz M, Loeffler M, Rosolowski M, Lopez C, Moller P, Richter J, Rohde M, Betts MJ, Russell RB, Bernhart SH, Hoffmann S, Rosenstiel P, Schilhabel M, Szczepanowski M, Trumper L, Klapper W, Siebert R, 'The PCBP1 gene encoding poly(rc) binding protein i is recurrently mutated in Burkitt lymphoma.', Genes Chromosomes Cancer. 2015 Sep;54(9):555-64. doi: 10.1002/gcc.22268. Epub 2015 Jul 14.
  8. Betts MJ, Lu Q, Jiang Y, Drusko A, Wichmann O, Utz M, Valtierra-Gutierrez IA, Schlesner M, Jaeger N, Jones DT, Pfister S, Lichter P, Eils R, Siebert R, Bork P, Apic G, Gavin AC, Russell RB, 'Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions.', Nucleic Acids Res. 2014 Nov 11. pii: gku1094.
  9. Suratanee A, Schaefer MH, Betts MJ, Soons Z, Mannsperger H, Harder N, Oswald M, Gipp M, Ramminger E, Marcus G, Manner R, Rohr K, Wanker E, Russell RB, Andrade-Navarro MA, Eils R, Konig R, 'Characterizing protein interactions employing a genome-wide siRNA cellular phenotyping screen.', PLoS Comput Biol. 2014 Sep 25;10(9):e1003814. doi: 10.1371/journal.pcbi.1003814. eCollection 2014 Sep.
  10. Rohde M, Richter J, Schlesner M, Betts MJ, Claviez A, Bonn BR, Zimmermann M, Damm-Welk C, Russell RB, Borkhardt A, Eils R, Hoell JI, Szczepanowski M, Oschlies I, Klapper W, Burkhardt B, Siebert R, 'Recurrent RHOA mutations in pediatric Burkitt lymphoma treated according to the NHL-BFM protocols.', Genes Chromosomes Cancer. 2014 Nov;53(11):911-6. doi: 10.1002/gcc.22202. Epub 2014 Jul 8.
  11. Hasselblatt M, Nagel I, Oyen F, Bartelheim K, Russell RB, Schuller U, Junckerstorff R, Rosenblum M, Alassiri AH, Rossi S, Schmid I, Gottardo NG, Toledano H, Viscardi E, Balbin M, Witkowski L, Lu Q, Betts MJ, Foulkes WD, Siebert R, Fruhwald MC, Schneppenheim R, 'SMARCA4-mutated atypical teratoid/rhabdoid tumors are associated with inherited germline alterations and poor prognosis.', Acta Neuropathol. 2014 Sep;128(3):453-6. doi: 10.1007/s00401-014-1323-x. Epub 2014 Jul 25.
  12. Bergmann AK, Schneppenheim S, Seifert M, Betts MJ, Haake A, Lopez C, Maria Murga Penas E, Vater I, Jayne S, Dyer MJ, Schrappe M, Duhrsen U, Ammerpohl O, Russell RB, Kuppers R, Durig J, Siebert R, 'Recurrent mutation of JAK3 in T-cell prolymphocytic leukemia.', Genes Chromosomes Cancer. 2014 Jan 21. doi: 10.1002/gcc.22141.
  13. Trabuco LG, Betts MJ, Russell RB, 'Negative protein-protein interaction datasets derived from large-scale two-hybrid experiments.', Methods. 2012 Aug 4.
  14. Jones DT, Jager N, Kool M, Zichner T, Hutter B, Sultan M, Cho YJ, Pugh TJ, Hovestadt V, Stutz AM, Rausch T, Warnatz HJ, Ryzhova M, Bender S, Sturm D, Pleier S, Cin H, Pfaff E, Sieber L, Wittmann A, Remke M, Witt H, Hutter S, Tzaridis T, Weischenfeldt J, Raeder B, Avci M, Amstislavskiy V, Zapatka M, Weber UD, Wang Q, Lasitschka B, Bartholomae CC, Schmidt M, von Kalle C, Ast V, Lawerenz C, Eils J, Kabbe R, Benes V, van Sluis P, Koster J, Volckmann R, Shih D, Betts MJ, Russell RB, Coco S, Tonini GP, Schuller U, Hans V, Graf N, Kim YJ, Monoranu C, Roggendorf W, Unterberg A, Herold-Mende C, Milde T, Kulozik AE, von Deimling A, Witt O, Maass E, Rossler J, Ebinger M, Schuhmann MU, Fruhwald MC, Hasselblatt M, Jabado N, Rutkowski S, von Bueren AO, Williamson D, Clifford SC, McCabe MG, Collins VP, Wolf S, Wiemann S, Lehrach H, Brors B, Scheurlen W, Felsberg J, Reifenberger G, Northcott PA, Taylor MD, Meyerson M, Pomeroy SL, Yaspo ML, Korbel JO, Korshunov A, Eils R, Pfister SM, Lichter P, 'Dissecting the genomic complexity underlying medulloblastoma.', Nature. 2012 Aug 2;488(7409):100-5.
  15. van Noort V, Seebacher J, Bader S, Mohammed S, Vonkova I, Betts MJ, Kuhner S, Kumar R, Maier T, O'Flaherty M, Rybin V, Schmeisky A, Yus E, Stulke J, Serrano L, Russell RB, Heck AJ, Bork P, Gavin AC, 'Cross-talk between phosphorylation and lysine acetylation in a genome-reduced bacterium.', Mol Syst Biol. 2012 Feb 28;8:571. doi: 10.1038/msb.2012.4.
  16. Gallego O, Betts MJ, Gvozdenovic-Jeremic J, Maeda K, Matetzki C, Aguilar-Gurrieri C, Beltran-Alvarez P, Bonn S, Fernandez-Tornero C, Jensen LJ, Kuhn M, Trott J, Rybin V, Muller CW, Bork P, Kaksonen M, Russell RB, Gavin AC, 'A systematic screen for protein-lipid interactions in Saccharomyces cerevisiae.', Mol Syst Biol. 2010 Nov 30;6:430.
  17. Arnesen T, Starheim KK, Van Damme P, Evjenth R, Dinh H, Betts MJ, Ryningen A, Vandekerckhove J, Gevaert K, Anderson D, 'The chaperone-like protein HYPK acts together with NatA in cotranslational N-terminal acetylation and prevention of Huntingtin aggregation.', Mol Cell Biol. 2010 Apr;30(8):1898-909. Epub 2010 Feb 12.
  18. Kuhner S, van Noort V, Betts MJ, Leo-Macias A, Batisse C, Rode M, Yamada T, Maier T, Bader S, Beltran-Alvarez P, Castano-Diez D, Chen WH, Devos D, Guell M, Norambuena T, Racke I, Rybin V, Schmidt A, Yus E, Aebersold R, Herrmann R, Bottcher B, Frangakis AS, Russell RB, Serrano L, Bork P, Gavin AC, 'Proteome organization in a genome-reduced bacterium.', Science. 2009 Nov 27;326(5957):1235-40.
  19. Arnesen T, Gromyko D, Kagabo D, Betts MJ, Starheim KK, Varhaug JE, Anderson D, Lillehaug JR, 'A novel human NatA Nalpha-terminal acetyltransferase complex: hNaa16p-hNaa10p (hNat2-hArd1).', BMC Biochem. 2009 May 29;10:15.
  20. Al-Amoudi A, Diez DC, Betts MJ, Frangakis AS, 'The molecular architecture of cadherins in native epidermal desmosomes.', Nature. 2007 Dec 6;450(7171):832-7.
  21. Betts MJ & Russell RB, 'The hard cell: from proteomics to a whole cell model.', FEBS Lett. 2007 Jun 19;581(15):2870-6. Epub 2007 May 30.
  22. Moelleken J, Malsam J, Betts MJ, Movafeghi A, Reckmann I, Meissner I, Hellwig A, Russell RB, Sollner T, Brugger B, Wieland FT, 'Differential localization of coatomer complex isoforms within the Golgi apparatus.', Proc Natl Acad Sci U S A. 2007 Mar 13;104(11):4425-30. Epub 2007 Mar 7.
  23. Berglund-Sonnhammer AC, Steffansson P, Betts MJ, Liberles DA, 'Optimal gene trees from sequences and species trees using a soft interpretation of parsimony.', J Mol Evol. 2006 Aug;63(2):240-50. Epub 2006 Jul 7.
  24. Arnesen T, Betts MJ, Pendino F, Liberles DA, Anderson D, Caro J, Kong X, Varhaug JE, Lillehaug JR, 'Characterization of hARD2, a processed hARD1 gene duplicate, encoding a human protein N-alpha-acetyltransferase.', BMC Biochem. 2006 Apr 25;7:13.
  25. Roth C, Betts MJ, Steffansson P, Saelensminde G, Liberles DA, 'The Adaptive Evolution Database (TAED): a phylogeny based tool for comparative genomics.', Nucleic Acids Res. 2005 Jan 1;33(Database issue):D495-7.
  26. Bonfield JK, Beal KF, Betts MJ, Staden R, 'Trev: a DNA trace editor and viewer.', Bioinformatics. 2002 Jan;18(1):194-5.
  27. Betts MJ, Guigo R, Agarwal P, Russell RB, 'Exon structure conservation despite low sequence similarity: a relic of dramatic events in evolution?', EMBO J. 2001 Oct 1;20(19):5354-60.
  28. Betts MJ & Sternberg MJ, 'An analysis of conformational changes on protein-protein association: implications for predictive docking.', Protein Eng. 1999 Apr;12(4):271-83.

Other Publications

  1. Betts MJ & Russell RB, 'A more structured metabolome.', Nat Struct Mol Biol. 2009 Nov;16(11):1125-6.
  2. Roth C, Betts MJ, Liberles DA, 'Protein content in chordate and embryophyte genomes.', In: Trends in Bioinformatics Research, Yan P (editor), Nova Science Publishers, Inc., 2005.
  3. Betts MJ & Russell RB, 'Amino acid properties and consequences of substitutions', In: Bioinformatics for Geneticists, Barnes & Gray (editors), Wiley (2003).