Previous Publications

    Publications with Contribution of Core Facility Members

    2016

    Bi J, Koivisto L, Owen G, Huang P, Wang Z, Shen Y, Bi L, Rokka A, Haapasalo M, Heino J, Häkkinen L, Larjava HS. Epithelian Microvesicles Promote an Inflammatory Phenotype in Fibroblasts. J Dent Res. 2016 Jun;95(6):680-8. doi: 10.1177/0022034516633172. Epub 2016 Feb 24. [PubMed]

    Kohtala S, Theilmann W, Suomi T, Wigren HK, Porkka-Heiskanen T, Elo LL, Rokka A, Rantamäki T. Brief Isoflurane Anesthesia Produces Prominent Phosphoproteomic Changes in the Adult Mouse Hippocampus. ACS Chem Neurosci. 2016 Apr 28. [Epub ahead of print] [PubMed]

    Vuorijoki L, Isojärvi J, Kallio P, Kouvonen P, Aro EM, Corthals G, Jones PR, Muth-Pawlak D. Development of a quantitative SRM based proteomics method to study iron matabolism of Synechocystis sp. PCC 6803. J Proteome Res. 2016 Jan 4;15(1):266-79. Epub 2015 Dec 22. [PubMed]

    2015

    Nguyen EV, Imanishi SY, Haapaniemi P, Yadav A, Saloheimo M, Corthals GL, Pakula T. Quantitative site-specific phosphoproteomics of Trichoderma reesei signaling pathways upon induction of hydrolytic enzyme production. J Proteome Res. 2015 Dec 21. [Epub ahead of print] [PubMed]

    Vehmas AP, Adam M, Laajala TD, Kastenmüller G, Prehn C, Rozman J, Ohlsson C, Fuchs H, de Angelis MH, Gailus-Durner V, Elo LL, Aittokallio T, Adamski J, Corthals G, Poutanen M, Strauss L. Liver lipid metabolism is altered by increased circulating estrogen to androgen ratio in male mouse. J Proteomics. 2015 Dec 9. [Epub ahead of print] [PubMed]

    Eisenhardt N, Chaugule VK, Koidl S, Droescher M, Dogan E, Rettich J, Sutinen P, Imanishi SY, Hofmann K, Palvimo JJ, Pichler A. A new vertebrate SUMO enzyme family reveals insights into SUMO-chain assembly. Nat Struct Mol Biol. 2015 Dec;22(12):959-67. Epub 2015 Nov 2. [PubMed], [Press Release]

    Pokharel YR, Saarela J, Szwajda A, Rupp C, Rokka A, Karna SK, Teittinen K, Corthals G, Kallioniemi O, Wennerberg K, Aittokallio T, Westermarck J. Relevance Rank Platform (RRP) for functional filtering of high content protein-protein interaction data. Mol Cell Proteomics. 2015 Dec;14(12):3274-83. Epub 2015 Oct 23. [PubMed]

    Suomi T, Corthals GL, Nevalainen OS, Elo LL. Using peptide-level proteomics data for detecting differentially expressed proteins. J Proteome Res.2015 Nov 6;14(11):4564-70. Epub 2015 Sep 29. [PubMed]

    Pursiheimo A, Vehmas AP, Afzal S, Suomi T, Chand T, Strauss L, Poutanen M, Rokka A, Corthals GL, Elo LL. Optimization of Statistical Methods Impact on Quantitative Proteomics Data. J Proteome Res. 2015 Oct 2;14(10):4118-26. Epub 2015 Sep 8. [PubMed]

    Huang P, Bi J, Owen GR, Chen W, Rokka A, Koivisto L, Heino J, Häkkinen L, Larjava H. Keratinocyte Microvesicles Regulate the Expression of Multiple Genes in Dermal Fibroblasts. J Invest Dermatol. 2015 Dec;135(12):3051-9. Epub 2015 Aug 19. [PubMed]

    Kauko O, Laajala TD, Jumppanen M, Hintsanen P, Suni V, Haapaniemi P, Corthals G, Aittokallio T, Westermarck J, Imanishi SY. Label-free quantitative phosphoproteomics with novel pairwise abundance normalization reveals synergistic RAS and CIP2A signaling. Sci Rep. 2015 Aug 17;5:13099. [PubMed]

    Anttonen AK, Hilander T, Linnankivi T, Isohanni P, French RL, Liu Y, Simonović M, Söll D, Somer M, Muth-Pawlak D, Corthals GL, Laari A, Ylikallio E, Lähde M, Valanne L, Lönnqvist T, Pihko H, Paetau A, Lehesjoki AE, Suomalainen A, Tyynismaa H. Selenoprotein biosynthesis defect causes progressive encephalopathy with elevated lactate. Neurology. 2015 Jul 28;85(4):306-15. Epub 2015 Jun 26. [PubMed]

    Li XG, Roivainen A, Bergman J, Heinonen A, Bengel F, Thum T, Knuuti J. Enabling [18F]-bicyclo[6.1.0]nonyne for oligonucleotide conjugation for positron emission tomography applications: [18F]-anti-microRNA-21 as an example. Chem Commun (Camb). 2015 Jun 2;51(48):9821-4. [PubMed]

    Kottahachchi D, Gooneratne L, Jayasekera A, Muth-Pawlak D, Moulder R, Imanishi SY, Ariyaratne A,  Rokka A, Corthals GL. Quantitative analysis of the erythrocyte membrane proteins in polycythemia vera patients treated with hydroxycarbamide. EuPA Open Proteom. 2015 Jun;7:43-53. [Link]

    Hyder CL, Kemppainen K, Isoniemi KO, Imanishi SY, Goto H, Inagaki M, Fazeli E, Eriksson JE, Törnquist K. Sphingolipids inhibit vimentin-dependent cell migration. J Cell Sci. 2015 Jun 1;128(11):2057-69. Epub 2015 Apr 23. [PubMed]

    Virtakoivu R, Mai A, Mattila E, De Franceschi N, Imanishi SY, Corthals G, Kaukonen R, Saari M, Cheng F, Torvaldson E, Kosma VM, Mannermaa A, Muharram G, Gilles C, Eriksson J, Soini Y, Lorens JB, Ivaska J. Vimentin-ERK signaling uncouples Slug gene regulatory function. Cancer Res. 2015 Jun 1;75(11):2349-62. Epub 2015 Apr 8. [PubMed]

    Lindqvist J, Imanishi SY, Torvaldson E, Malinen M, Remes M, Örn F, Palvimo JJ, Eriksson JE. Cyclin-dependent kinase 5 acts as a critical determinant of AKT-dependent proliferation and regulates differential gene expression by the androgen receptor in prostate cancer cells. Mol Biol Cell. 2015 Jun 1;26(11):1971-84. Epub 2015 Apr 7. [PubMed]

    Suni V*, Imanishi SY*, Maiolica A, Aebersold R, Corthals GL (* Equal contribution). Confident site localization using a simulated phosphopeptide spectral library. J Proteome Res.  2015 May 1;14(5):2348-59. Epub 2015 Mar 27. [PubMed] [Download SimPhospho]

    Guo T, Kouvonen P, Koh CC, Gillet LC, Wolski WE, Röst HL, Rosenberger G, Collins BC, Blum LC, Gillessen S, Joerger M, Jochum W, Aebersold R. Rapid mass spectrometric conversion of tissue biopsy samples into permanent quantitative digital proteome maps. Nat Med. 2015 Apr;21(4):407-13. Epub 2015 Mar 2. [PubMed]

    See press release from University of Turku and ETH Zurich.

    Emani MR, Närvä E, Stubb A, Chakroborty D, Viitala M, Rokka A, Rahkonen N, Moulder R, Denessiouk K, Trokovic R, Lund R, Elo LL, Lahesmaa R. The L1TD1 Protein Interactome Reveals the Importance of Post-transcriptional Regulation in Human Pluripotency. Stem Cell Reports. 2015 Mar 10;4(3):519-28. Epub 2015 Feb 19. [PubMed]

    Konert G, Trotta A, Kouvonen P, Rahikainen M, Durian G, Blokhina O, Fagerstedt K, Muth D, Corthals GL, Kangasjärvi S. Protein phosphatase 2A (PP2A) regulatory subunit B’γ interacts with cytoplasmic ACONITASE 3 and modulates the abundance of AOX1A and AOX1D in Arabidopsis thaliana. New Phytol. 2015 Feb;205(3):1250-63. Epub 2014 Oct 13. [PubMed]

    2014

    Lehtimäki N, Koskela MM, Dahlström KM, Pakula E, Lintala M, Scholz M, Hippler M, Hanke GT, Rokka A, Battchikova N, Salminen TA, Mulo P. Posttranslational modifications of FERREDOXIN-NADP+ OXIDOREDUCTASE in Arabidopsis chloroplasts. Plant Physiol. 2014 Dec;166(4):1764-76. Epub 2014 Oct 9. [PubMed]

    Oksanen A, Aittomäki S, Jankovic D, Ortutay Z, Pulkkinen K, Hämäläinen S, Rokka A, Corthals GL, Watford WT, Junttila I, O’Shea JJ, Pesu M. Proprotein Convertase FURIN Constrains Th2 Differentiation and Is Critical for Host Resistance against Toxoplasma gondii. J Immunol. 2014 Dec 1;193(11):5470-9. Epub 2014 Oct 29. [PubMed]

    Aktuganov G, Jokela J, Kivelä H, Khalikova E, Melentjev A, Galimzianova N, Kuzmina L, Kouvonen P, Himanen JP, Susi P, Korpela T. Isolation and identification of cyclic lipopeptides from Paenibacillus ehimensis, strain IB-X-b. J Chromatogr B Analyt Technol Biomed Life Sci. 2014 Oct 8;973C:9-16. [PubMed]

    Rosenberger G, Koh CC, Guo T, Röst HL, Kouvonen P, Collins BC, Heusel M, Liu Y, Caron E, Vichalkovski A, Faini M, Schubert OT, Faridi P, Ebhardt HA, Matondo M, Lam H, Bader SL, Campbell DS, Deutsch EW, Moritz RL, Tate S, Aebersold R. A repository of assays to quantify 10,000 human proteins by SWATH-MS. Scientific data 2014 Sep 16 [PubMed]

    Vehmas AP, Muth-Pawlak D, Huhtinen K, Saloniemi-Heinonen T, Jaakkola K, Laajala TD, Kaprio H, Suvitie PA, Aittokallio T, Siitari H, Perheentupa A, Poutanen M, Corthals GL. Ovarian endometriosis signatures established through discovery and directed mass spectrometry analysis. J Proteome Res. 2014 Nov 7;13(11):4983-94.  Epub 2014 Aug 20. [PubMed]

    Kochin V, Shimi T, Torvaldson E, Adam SA, Goldman A, Pack CG, Melo-Cardenas J, Imanishi SY, Goldman RD, Eriksson JE. Interphase phosphorylation of lamin A. J Cell Sci. 2014 Jun 15;127(Pt 12):2683-96. Epub 2014 Apr 16. [PubMed]

    Sjöqvist M, Antfolk D, Ferraris S, Rraklli V, Haga C, Antila C, Mutvei A, Imanishi SY, Holmberg J, Jin S, Eriksson JE, Lendahl U, Sahlgren C. PKCζ regulates Notch receptor routing and activity in a Notch signaling-dependent manner. Cell Res. 2014 Apr;24(4):433-50. Epub 2014 Mar 25. [PubMed]

    Kannaste O, Suomi T, Salmi J, Uusipaikka E, Nevalainen O, Corthals GL. Cross-correlation of spectral count ranking to validate quantitative proteome measurements. J Proteome Res. 2014 Apr 4;13(4):1957-68. Epub 2014 Mar 26.[PubMed]

    Araújo JE, Oliveira EJ, Kouvonen P, Corthals GL, Lodeiro C, Santos HM, Capelo JL. A journey through PROTEOSONICS. Talanta. 2014 Apr;121C:71-80. Epub 2014 Jan 3. [PubMed]

    2013

    McDonnell LA, Walch A, Stoeckli M, Corthals GL. MSiMass List: A Public Database of Identifications for Protein MALDI MSI. J Proteome Res. 2014 Feb 7;13(2):1138-42. Epub 2013 Dec 13. [PubMed]

    Westermarck J, Ivaska J, Corthals GL. Identification of Protein Interactions Involved in Cellular Signalling. Mol Cell Proteomics. 2013 Jul;12(7):1752-63. Epub 2013 Mar 12. [PubMed]

    Santos HM, Kouvonen P, Capelo JL, Corthals GL. On-target ultrasonic digestion of proteins. Proteomics. 2013 May; 13(9):1423-7. Epub 2013 Mar 4. [PubMed]

    Velasquez EV, Ríos M, Ortiz ME, Lizama C, Nuñez E, Abramovich D, Orge F, Oliva B, Orellana R, Villalon M, Moreno RD, Tesone M, Rokka A, Corthals G, Croxatto HB, Parborell F, Owen GI. Concanavalin-A induces granulosa cell death and inhibits FSH mediated follicular growth and ovarian maturation in female rats. Endocrinology. 2013 May;154(5):1885-96. Epub 2013 Mar 20. [PubMed]

    Tyagarajan SK, Ghosh H, Yevenes GE, Imanishi SY, Zeilhofer HU, Gerrits B, Fritschy JM. Extracellular Signal-regulated Kinase and Glycogen Synthase Kinase 3β Regulate Gephyrin Postsynaptic Aggregation and GABAergic Synaptic Function in a Calpain-dependent Mechanism. J Biol Chem. 2013 Apr 5;288(14):9634-47. Epub 2013 Feb 13. [PubMed]

    Koch S, Scifo E, Rokka A, Trippner P, Lindfors M, Korhonen R, Corthals G, Virtanen I, Lalowski M, Tyynelä J. Cathepsin D deficiency induces cytoskeletal changes and affects cell migration pathways in the brain. Neurobiol Dis. 2013 Feb;50:107-19. Epub 2012 Oct 12. [PubMed]

    2012

    Perdomo MF, Hosia W, Jejcic A, Corthals GL, Vahlne A. Human serum protein enhances HIV-1 replication and up-regulates the transcription factor AP-1. Proc Natl Acad Sci U S A. 2012 Oct 23;109(43):17639-44. [PubMed]

    McDonnell L, Andrén PE, Corthals GL. J Proteomics. Imaging mass spectrometry: a user’s guide to a new technique for biological and biomedical research. Preface. J Proteomics. 2012 Aug 30;75(16):4881-2. [PubMed]

    McDonnell LA, Heeren RM, Andrén PE, Stoeckli M, Corthals GL. Going forward: Increasing the accessibility of imaging mass spectrometry. J Proteomics. 2012 Aug 30;75(16):5113-21.[PubMed]

    Santos HM, Kouvonen P, Capelo JL, Corthals GL. Isotopic labelling of peptides in tissues enhances mass spectrometric profiling. Rapid Commun Mass Spectrom. 2012 Feb 15;26(3):254-62. [PubMed]

    2011

    Corthals GL, Dunn M, James P, Gil C, Penque D, Albar JP, Andrén P, Rabilloud T, Marko-Varga G. The transition of the European Proteomics Association into the future. J. Proteomics. 2011 Dec 10;75(1):18-22. Epub 2011 Jun 28. [PubMed]

    Grouneva I, Rokka A, Aro EM. The thylakoid membrane proteome of two marine diatoms outlines both diatom-specific and species-specific features of the photosynthetic machinery. J Proteome Res. 2011 Dec 2;10(12):5338-53. Epub 2011 Nov 9. [PubMed]

    Legrain P, Aebersold R, Archakov A, Bairoch A, Bala K, Beretta L, Bergeron J, Borchers C, Corthals GL , Costello CE, Deutsch EW, Domon B, Hancock W, He F, Hochstrasser D, Marko-Varga G, Salekdeh GH, Sechi S, Snyder M, Srivastava S, Uhlen M, Hu CH, Yamamoto T, Paik YK, Omenn GS. The human proteome project: Current state and future direction. Mol Cell Proteomics. 2011 Apr 29. [Epub ahead of print] [PubMed]

    Leivonen SK, Rokka A, Ostling P, Kohonen P, Corthals GL, Kallioniemi O, Perälä M. Identification of miR-193b targets in breast cancer cells and systems biological analysis of their functional impact. Mol Cell Proteomics. 2011 Jul;10(7):M110.005322. Epub 2011 Apr 21. [PubMed]

    Rodrigues AJ, Neves-Carvalho A, Teixeira-Castro A, Rokka A, Corthals G, Logarinho E, Maciel P. Absence of Ataxin-3 leads to enhanced stress response in C. elegans. PLoS One. 2011 Apr 19;6(4):e18512.19.[PubMed]

    Rokka A, Aro EM, Vener AV. Thylakoid phosphoproteins: identification of phosphorylation sites. Methods Mol Biol. 2011;684:171-86. [PubMed]

    Kouvonen P,  Rainio EM, Suni V, Koskinen P, Corthals GL. Enrichment and sequencing of phosphopeptides on indium tin oxide coated glass slides. Mol. Biosyst., 2011, Jun;7(6):1828-37. Epub 2011 Apr 27. [PubMed]

    2010

    Kouvonen P, Rainio EM, Suni V, Koskinen P, Corthals GL. Data combination from multiple matrix-assisted laser desorption/ionization (MALDI) matrices: opportunities and limitations for MALDI analysis.Rapid Commun. Mass Spectrom. 2010 Dec 15;24(23):3493-5. [PubMed]

    Abrahams JP, Apweiler R, Balling R, Bertero MG, Bujnicki JM, Chayen NE, Chène P, Corthals GL et al. “4D Biology for health and disease” workshop report. N Biotechnol. 2010 Oct 15. [PubMed]

    do Carmo Costa M, Bajanca F, Rodrigues AJ, Tomé RJ, Corthals G et.al. Ataxin-3 plays a role in mouse myogenic differentiation through regulation of integrin subunit levels. PLoS One. 2010 Jul 23;5(7):e11728. [PubMed]

    Medina-Aunon JA, Paradela A, Macht M, Thiele H, Corthals G, Albar JP. Protein Information and Knowledge Extractor: Discovering biological information from proteomics data. Proteomics. 2010 Sep;10(18):3262-71. [PubMed]

    McDonnell LA, Corthals GL, Willems SM, van Remoortere A, van Zeijl RJ, Deelder AM. Peptide and protein imaging mass spectrometry in cancer research. J Proteomics. 2010 Sep 10;73(10):1921-44. [PubMed]

    Moulder R, Lönnberg T, Elo LL, Filén JJ, Rainio E, Corthals G, Oresic M, Nyman TA, Aittokallio T, Lahesmaa R. Quantitative proteomics analysis of the nuclear fraction of human CD4+ cells in the early phases of IL-4-induced Th2 differentiation. Mol Cell Proteomics.2010 Sep;9(9):1937-53. [PubMed]

    Blomster HA*, Imanishi SY*, Siimes J, Kastu J, Morrice NA, Eriksson JE, Sistonen L (*Equal contribution). In vivo identification of sumoylation sites by a signature tag and cysteine-targeted affinity purification. J Biol Chem. 2010 Jun 18;285(25):19324-9. Epub 2010 Apr 13. [PubMed]

    Mutka AL, Haapanen A, Käkelä R, Lindfors M, Wright AK, Inkinen T, Hermansson M, Rokka A, Corthals G, Jauhiainen M, Gillingwater TH, Ikonen E, Tyynelä J. Murine cathepsin D deficiency is associated with dysmyelination/myelin disruption and accumulation of cholesteryl esters in the brain. J Neurochem. 2010 Jan 1;112(1):193-203. [PubMed]

    2009

    Imanishi SY, Kouvonen P, Smått JH, Heikkilä M, Peuhu E, Mikhailov A, Ritala M, Lindén M, Corthals GL, Eriksson JE. Phosphopeptide enrichment with stable spatial coordination on a titanium dioxide coated glass slide. Rapid Commun Mass Spectrom. 2009 Dec;23(23):3661-7 [PubMed]

    Orchard S, Deutsch EW, Binz PA, Jones AR, Creasy D, Montechi-Palazzi L, Corthals G, Hermjakob H. Annual spring meeting of the Proteomics Standards Initiative. Proteomics. 2009 Oct;9(19):4429-32. [PubMed]

    Rodrigues AJ, Neves-Carvalho A, Ferro A, Rokka A, Corthals G, Logarinho E, Maciel P. ATX-3, CDC-48 and UBXN-5: a new trimolecular complex in Caenorhabditis elegans. Biochem Biophys Res Commun. 2009 Sep 4;386(4):575-81. [PubMed]

    Blomster HA, Hietakangas V, Wu J, Kouvonen P, Hautaniemi S, Sistonen L. Novel proteomics strategy brings insight into the prevalence of SUMO-2 target sites. Mol Cell Proteomics. 2009 Jun;8(6):1382-90. Epub 2009 Feb 24. [PubMed]

    Kouvonen P, McDonnell LA, Heeren RM, Corthals GL. Nitromatrix provides improved LC-MALDI signals and more protein identifications. Proteomics. 2009 Mar;9(6):1662-71. [PubMed]

    Filén JJ, Filén S, Moulder R, Tuomela S, Ahlfors H, West A, Kouvonen P, Kantola S, Björkman M, Katajamaa M, Rasool O, Nyman TA, Lahesmaa R. Quantitative proteomics reveals GIMAP family proteins 1 and 4 to be differentially regulated during human T helper cell differentiation. Mol Cell Proteomics. 2009 Jan;8(1):32-44. [PubMed]

    2008

    Mattinen L, Somervuo P, Nykyri J, Nissinen R, Kouvonen P, Corthals G, Auvinen P, Aittamaa M, Valkonen JP, Pirhonen M. Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum. Microbiology. 2008 Aug;154(Pt 8):2387-96. [PubMed]

    Korolainen MA, Corthals GL, Kouvonen P, Kurkinen KM, Nyman TA. 3rd Annual FinnProt Meeting: from cells to systems. Expert Rev Proteomics. 2008 Jun;5(3):389-91. [PubMed]

    Buggiotti L, Primmer CR, Kouvonen P, Bures S, Corthals GL, Leder EH. Identification of differentially expressed proteins in Ficedula flycatchers. Proteomics.2008 May;8(10):2150-3. [PubMed]

    Dunn MJ, Gil C, Kleinhammer C, Lottspeich F, Pennington S, Sanchez JC, Albar JP, Bini L, Corrales F, Corthals GL, Fountoulakis MM, Hoogland C, James P, Jensen ON, Jiménez C, Jorrín-Novo J, Kraus HJ, Meyer H, Noukakis D, Palagi PM, Penque D, Quinn A, Rabilloud T. EuPA achieves visibility – an activity report on the first three years. J Proteomics. 2008 Apr 30;71(1):11-8. [PubMed]

    2007

    Albar JP, Corthals GL, Gil C, James P, Jensen ON, Palagi PM, Penque D; EuPA Education Committee. Promoting proteomics knowledge in Europe: report on the activities of the EuPA Education Committee 2006-2007. Proteomics. 2007 Sep;7 Suppl 1:90-4. [PubMed]

    Imanishi SY, Kochin V, Ferraris SE, de Thonel A, Pallari HM, Corthals GL, Eriksson JE. Reference-facilitated phosphoproteomics: fast and reliable phosphopeptide validation by microLC-ESI-Q-TOF MS/MS. Mol Cell Proteomics. 2007 Aug;6(8):1380-91. [PubMed]

    2006

    James P, Corthals G, Gil C; EuPA Education Committee. Report. Proteomics education, an important challenge for the scientific community: report on the activities of the EuPA Education Committee. Proteomics. 2006 Sep;6 Suppl 2:77-81. [PubMed]

    Takatalo MS, Kouvonen P, Corthals G, Nyman TA, Rönnholm RH. Identification of new Golgi complex specific proteins by direct organelle proteomic analysis. Proteomics. 2006 Jun;6(12):3502-8. [PubMed]

    Salmi J, Moulder R, Filén JJ, Nevalainen OS, Nyman TA, Lahesmaa R, Aittokallio T. Quality classification of tandem mass spectrometry data. Bioinformatics. 2006 Feb 15;22(4):400-6. [PubMed]

    2005

    Corthals GL, Aebersold R, Goodlett DR. Identification of phosphorylation sites using microimmobilized metal affinity chromatography. Methods Enzymol. 2005;405:66-81. Review. [PubMed]

    Kleinhammer C, Corthals GL. The European Proteomics Association (EuPA) is in the field. Report of the formal inauguration of the European Proteome Association (Munich, Germany, August 29, 2005). Proteomics. 2005 Dec;5(18):4648-50. [PubMed]

    Moulder R, Filén JJ, Salmi J, Katajamaa M, Nevalainen OS, Oresic M, Aittokallio T, Lahesmaa R, Nyman TA. A comparative evaluation of software for the analysis of liquid chromatography-tandem mass spectrometry data from isotope coded affinity tag experiments. Proteomics. 2005 Jul;5(11):2748-60. [PubMed]

    Tiacci E, Orvietani PL, Bigerna B, Pucciarini A, Corthals GL, Pettirossi V, Martelli MP, Liso A, Benedetti R, Pacini R, Bolli N, Pileri S, Pulford K, Gambacorta M, Carbone A, Pasquarello C, Scherl A, Robertson H, Sciurpi MT, Alunni-Bistocchi G, Binaglia L, Byrne JA, Falini B. Tumor protein D52 (TPD52): a novel B-cell/plasma-cell molecule with unique expression pattern and Ca(2+)-dependent association with annexin VI. Blood. 2005 Apr 1;105(7):2812-20. [PubMed]

    Bilati U, Pasquarello C, Corthals GL, Hochstrasser DF, Allémann E, Doelker E. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry for quantitation and molecular stability assessment of insulin entrapped within PLGA nanoparticles. J Pharm Sci. 2005 Mar;94(3):688-94. [PubMed]

    Tremolada L, Magni F, Valsecchi C, Sarto C, Mocarelli P, Perego R, Cordani N, Favini P, Galli Kienle M, Sanchez JC, Hochstrasser DF, Corthals GL. Characterization of heat shock protein 27 phosphorylation sites in renal cell carcinoma. Proteomics. 2005 Feb;5(3):788-95. [PubMed]

    Scherl A, François P, Bento M, Deshusses JM, Charbonnier Y, Converset V, Huyghe A, Walter N, Hoogland C, Appel RD, Sanchez JC, Zimmermann-Ivol CG, Corthals GL, Hochstrasser DF, Schrenzel J. Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth. J Microbiol Methods. 2005 Feb;60(2):247-57. [PubMed]

    Selected Articles Citing the Proteomics Core

    Rahikainen, M., Trotta, A., Alegre, S., Pascual, J., Vuorinen, K., Overmyer, K., Moffatt, B., Ravanel, S., Glawischnig, E. and Kangasjärvi, S. (2016), PP2A-B’γ modulates foliar trans-methylation capacity and formation of 4-methoxy-indol-3-yl-methyl glucosinolate in Arabidopsis leaves. Plant J. Accepted Author Manuscript. doi:10.1111/tpj.13326 [PubMed]

    Martinez-Brave MJ, Wahlund CJ, Qazi KR, Moulder R, Lukic A, Rådmark O, Lahesmaa R, Grunewald J, Eklund A, Gabrielsson S. Pulmonary Sarcoidosis is Associated With Exosomal Vitamin D-Binding Protein and Inflammatory Molecules. J Allergy Clin Immunol. 2016 Aug 23. pii: S0091-6749(16)30850-8. [Epub ahead of print] [PubMed]

    Soderholm S, Kainov DE, Ohman T, Denisova OV, Schepens B, Kulesskiy E, Imanishi SY, Corthals G, Hintsanen P, Aittokallio T, Saelens X, Matikainen S, Nyman TA. Phosphoproteomics to characterize host response during influenza A virus infection of human macrophages. Mol Cell Proteomics. 2016 Aug 2. doi: 10.1074/mcp.M116.057984. [Epub ahead of print] [PubMed]

    Santio NM, Landor SK, Vahtera L, Ylä-Pelto J, Paloniemi E, Imanishi SY, Corthals G, Varjosalo M, Manoharan GB, Uri A, Lendahl U, Sahlgren C, Koskinen PJ. Phosphorylation of Notch1 by Pim kinases promotes oncogenic signaling in breast and prostate cancer cells. Oncotarget. 2016 May 7. doi: 10.18632/oncotarget.9215. [Epub ahead of print] [PubMed]

    Trotta A, Suorsa M, Rantala M, Lundin B, Aro EM. Serine and threonine residues of plant STN7 kinase are differentially phosphorylated upon changing light conditions and specifically influence the activity and stability of the kinase. Plant J. 2016 May 23. doi: 10.1111/tpj.13213. [Epub ahead of print] [PubMed]

    Grouneva I, Muth-Pawlak D, Battchikova N, Aro EM. Changes in Relative Thylakoid Protein Abundance Induced by Fluctuating Light in the Diatom Thalassiosira pseudonana. J Proteome Res. 2016 May 6;15(5):1649-58. doi: 10.1021/acs.jproteome.6b00124 Epub 2016 Apr 19. [PubMed]

    Mustila H, Paananen P, Battchikova N, Santana-Sánchez A, Muth-Pawlak D, Hagemann M, Aro EM, Allahverdiyeva Y. The Flavodiiron Protein Flv3 Functions as a Homo-Oligomer During Stress Acclimation and is Distinct from the Flv1/Flv3 Hetero-Oligomer Specific to the O2 Photoreduction Pathway. Plant Cell Physiol. 2016 Mar 2. pii:pcw047. [Epub ahead of print] [PubMed]

    Landowski CP, Huuskonen A, Wahl R, Westerholm-Parvinen A, Kanerva A, Hänninen AL, Salovuori N, Penttilä M, Natunen J, Ostermeier C, Helk B, Saarinen J, Saloheimo M. Enabling Low Cost Biopharmaceuticals: A Systematic Approach to Delete Proteases from a Well-Known Protein Production Host Trichoderma reesei. PLoS One. 2015 Aug 26;10(8):e0134723. [PubMed]

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