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Publications 2007

• Admyre C, Johansson SM, Oazi KR, Filen JJ, Lahesmaa R, Norman M, Neve EP, Scheynius A & Gabrielsson S. (2007) Exosomes with immune modulatory features are present in human breast milk. J Immunol. 179:1969-78.
• Airas L, Nikula T, Huang YH, Lahesmaa R & Wiendl H. (2007) Postpartum-activation of multiple sclerosis is associated with down-regulation of tolerogenic HLA-G. J Neuroimmunol. 187:205-11.
• Alho N, Klaavuniemi T, Ylänne J, Permi P & Mattila S. (2007) Backbone NMR assignment of the internal interaction site of ALP. Biomolecular NMR Assignment 1:85-87.
• Amundsen LK & Sirén H. (2007) Immunoaffinity CE in clinical analysis of body fluids and tissues. (review) Electrophoresis. 28:99-113.
• Amundsen LK & Sirén H. (2007) Determination of association constants between steroid compounds and albumins by partial-filling ACE. Electrophoresis. 28:3737-44.
• Amundsen LK, Nevanen TK, Takkinen K, Rovio S & Sirén H. (2007) Microscale immunoaffinity SPE and MEKC in fast determination of testosterone in male urine. Electrophoresis. 28:3232-3241.
• Andberg M, Jäntti J, Heilimo S, Pihkala P, Paananen A, Koskinen AMP, Söderlund H, & Linder MB. (2007) Cleavage of recombinant proteins at poly-His sequences by Co(II) and Cu(II). Protein Sci. 16:1751-1761.
• AstierY, Kainov DE, Bayley H, Tuma R & Howorka S. (2007). Stochastic Detection of Motor Protein-RNA Complexes by Single-Channel Current Recording. ChemPhysChem. 8:2189-94.
• Belevich I, Bloch DA, Belevich N, Wikström M & Verkhovsky MI. (2007) Exploring the proton pump mechanism of cytochrome c oxidase in real time. Proc Natl Acad Sci USA. 104:2685-2690.
• Belevich I, Borisov VB & Verkhovsky MI. (2007) Discovery of the true peroxy intermediate in the catalytic cycle of terminal oxidases by the real-time measurement. J Biol Chem. 282:28514-28519.
• Belevich I, Borisov VB, Bloch DA, Konstantinov AA & Verkhovsky MI. (2007) Cytochrome bd from Azotobacter vinelandii: evidence for high-affinity oxygen binding. Biochemistry. 46:11177-11184.
• Björkbom A, Ramstedt B & Slotte JP. (2007) Phosphatidylcholine and sphingomyelin containing an elaidoyl fatty acid can form cholesterol-rich lateral domains in bilayer membranes. Biochim Biophys Acta. 1768:1839-47.
• Bogachev AV, Bertsova YV, Aitio O, Permi P & Verkhovsky MI. (2007) Redox-dependent sodium binding by the Na+-translocating NADH:quinone oxidoreductase from Vibrio harveyi. Biochemistry. 46:10186-10191.
• Brown RE & Mattjus P. (2007) Glycolipid transfer proteins. Biochim Biophys Acta. 1771:746-60.
• Collado MC, Meriluoto J & Salminen S. (2007) Development of new probiotics by strains combination: is it possible to improve the adhesion to intestinal mucus?. Journal of Dairy Science. 90:2710-2716.
• Collado MC, Meriluoto J & Salminen S. (2007) In vitro analysis of probiotic strain combinations to inhibit pathogen adhesion to human intestinal mucus. Food Researc International 40:629-636.
• Collado MC, Meriluoto J & Salminen S. (2007) Measurement of aggregation properties between probiotics and pathogens: in vitro evaluation of different methods. Journal of Microbiological Methods. 71:71-74.
• Collado MC, Meriluoto J & Salminen S. (2007) Role of commercial probiotic strains against human pathogen adhesion to intestinal mucus. Letters in Applied Microbiology. 45:454-460.
• Collado MC, Surono I, Meriluoto J & Salminen S. (2007) Indigenous dadih lactic acid bacteria: cell-surface properties and interactions with pathogens. Journal of Food Science 72:M89-M93.
• Collado MC, Surono I, Meriluoto J & Salminen S. (2007) Potential probiotic characteristics of Lactobacillus and Enterococcus strains isolated from traditional dadih fermented milk against pathogen intestinal colonization. Journal of Food Protection. 70:700-705.
• Connors WL, Jokinen J, White DJ, Puranen JS, Kankaanpää P, Upla P, Tulla M, Johnson MS & Heino J. (2007) Two synergistic activation mechanisms of alpha2beta1 integrin-mediated collagen binding. J Biol Chem. 282:14675-83.
• D'Angelo G, Polishchuk E, Di Tullio G, Santoro M, Di Campli A, Godi A, West G, Bielawski J, Chuang CC, van der Spoel AC, Platt FM, Hannun YA, Polishchuk R, Mattjus P & De Matteis MA. (2007) Glycosphingolipid synthesis requires FAPP2 transfer of glucosylceramide. Nature. 449:62-7.
• Denessiouk K, Denesyuk A, Johnson MS. (2007) Negative modulation of signal transduction via interleukin splice variation. Proteins. 71:751-770.
• Dolman NP, More JCA, Alt A, Pentikäinen OT, Glasser CR, Bleakman D, Mayer ML, Collingridge GL & Jane DE. (2007) Synthesis and Pharmacological Characterization of N3-Substituted Willardiine Derivatives: Role of the Substituent at the 5-Position of the Uracil Ring in the Development of Highly Potent and Selective GLUK5 Kainate Receptor Antagonists. J Med Chem. 50:1558-1570.
• Elo LL, Jarvenpaa H, Oresic M, Lahesmaa R & Aittokallio T. (2007) Systematic construction of gene coexpression networks with applications to human T helper cell differentiation process. Bioinformatics. 23:2096-103.
• Fabrichniy IP*, Lehtio L*, Tammenkoski M, Zyryanov AB, Oksanen E, Baykov AA, Lahti R & Goldman A. (2007) A trimetal site and substrate distortion in a family II inorganic pyrophosphatase. J Biol Chem. 282:1422-31.
• Fredriksson K. (2007) Structure and dynamics of coil-like molecules by residual dipolar couplings. Institute of Biotechnology, University of Helsinki, Helsinki. (Dissertation)
• Giardine B, Riemer C, Hefferon T, Thomas D, Hsu F, Zielenski J, Sang Y, Elnitski L, Cutting G, Trumbower H, Kern A, Kuhn R, Patrinos GP, Hughes J, Higgs D, Chui D, Scriver C, Phommarinh M, Patnaik SK, Blumenfeld O, Gottlieb B, Vihinen M, Valiaho J, Kent J, Miller W & Hardison RC. (2007) PhenCode: connecting ENCODE data with mutations and phenotype. Hum Mutat. 28:554-62.
• Gorbikova E, Belevich NP, Wikström M & Verkhovsky MI. (2007) Protolytic Reactions on Reduction of Cytochrome c Oxidase Studied by ATR-FTIR Spectroscopy. Biochemistry. 46:4177-4183.
• Gorbikova E, Belevich NP, Wikström M & Verkhovsky MI. (2007) Time-resolved ATR-FTIR spectroscopy of the oxygen reaction in the D124N mutant of cytochrome c oxidase from Paracoccus denitrificans. Biochemistry. 46:13141-13148.
• Grönholm T, Annila A. (2007) Natural distribution. Math Biosci. 210:659-67.
• Halter D, Neumann S, van Dijk SM, Wolthoorn J, de Mazière AM, Vieira OV, Mattjus P, Klumperman J, van Meer G & Sprong H. (2007) Pre- and post-Golgi translocation of glucosylceramide in glycosphingolipid synthesis. J Cell Biol. 179:101-15.
• Harju TH, Peltoniemi MJ, Rytilä PH, Salmenkivi KM, Board PG, Soini Y, Ruddock LW & Kinnula VL. (2007) Glutathione S-transferase omega in the lung and sputum supernatants of COPD patients. Respiratory Research. 8:48.
• Hartiala P, Hytonen J, Pelkonen J, Kimppa K, West A, Penttinen MA, Suhonen J, Lahesmaa R & Viljanen MK. (2007) Transcriptional response of human dendritic cells to Borrelia garinii--defective CD38 and CCR7 expression detected. J Leukoc Biol. 82:33-43.
• Hatahet F & Ruddock LW. (2007) Substrate recognition by the protein disulfide isomerases. FEBS J. 274:5223-5234.
• Helppolainen SH, Nurminen KP, Määttä JA, Halling KK, Slotte JP, Huhtala T, Liimatainen T, Ylä-Herttuala S, Airenne KJ, Narvanen A, Jänis J, Vainiotalo P, Valjakka J, Kulomaa MS & Nordlund HR. (2007) Rhizavidin from Rhizobium etli: the first natural dimer in the avidin protein family. Biochem J. 405:397-405.
• Huiskonen JT & Butcher SJ. (2007) Membrane-containing viruses with icosahedrally symmetric capsids. Current Opinion in Structural Biology. 17:229-36.
• Huiskonen JT, Jäälinoja HT, Briggs JAG, Fuller SD & Butcher SJ. (2007). Structure of a hexameric RNA packaging motor in a viral polymerase complex. J Struct Biol. 158:156-64.
• Huiskonen JT, Manole V & Butcher SJ. (2007) A tale of two spikes in bacteriophage PRD1. Proc Natl Acad Sci. (USA) 104:6666-71.
• Huttunen RJ, O'Riordan TC, Härkönen PL, Soini JT, Meltola NJ, Hänninen PE, Soini AE. (2007) Quantitative detection of cell surface protein expression by time-resolved fluorometry. Luminescence. 22:163-170.
• Hytönen VP, Määttä JAE, Niskanen EA, Huuskonen J, Helttunen KJ, Halling KK, Nordlund HR, Rissanen K, Johnson MS, Salminen TA, Kulomaa MS, Laitinen OH & Airenne TT. (2007) Structure and characterization of a novel chicken biotin-binding protein A (BBP-A). BMC Struct Biol 7:8.
• Ihalainen TO, Niskanen EA, Jylhävä J, Turpeinen T, Rinne J, Timonen J & Vihinen-Ranta M. (2007) Dynamics and interactions of parvoviral NS1 protein in the nucleus. Cell Microbiol. 9:1946-59.
• Ikonen TP, Li H, Psencik J, Laurinmäki PA, Butcher SJ, Frigaard N-U, Serimaa RE, Bryant DE & Tuma R. (2007) X-ray scattering and electron cryomicroscopy study on the effect of carotenoid biosynthesis to the structure of C. tepidum chlorosomes, Biophys J. 93:620-8.
• Ikonen TP. (2007) X-ray and neutron scattering studies on some nanoscale structures in molecular biology. Department of Physical Sciences, University of Helsinki, Helsinki. (Dissertation)
• Imanishi SY, Kochin V, Ferraris SE, de Thonel A, Pallari H-M, Corthals G, Eriksson JE. (2007) Reference-facilitated phosphoproteomics: fast and reliable phosphopeptide validation by LC-ESI-Q-TOF-MS/MS. Mol Cell Proteomics. 6:1380-91.
• Jämsen J, Tuominen H, Salminen A, Belogurov GA, Magretova NN, Baykov AA & Lahti R. (2007) A CBS domain-containing pyrophosphatase of Moorella thermoacetica is regulated by adenine nucleotides. Biochem J. 408:327-333.
• Jänis J, Pulkkinen P, Rouvinen J & Vainiotalo P. (2007) Determination of steady-state kinetic parameters for a xylanase-catalyzed hydrolysis of neutral underivatizedxylooligosaccharides by mass spectrometry. Anal Biochem. 365:165-173.
• Järvenpää S, Lundberg-Niinistö C, Spoof L, Sjövall O, Tyystjärvi E & Meriluoto J. (2007) Effects of microcystins on broccoli and mustard, and analysis of accumulated toxin by liquid chromatography-mass spectrometry. Toxicon 49:865-874.
• Jäälinoja HT, Huiskonen JT & Butcher SJ. (2007) Electron cryo-microscopy comparison of the architectures of the enveloped bacteriophages phi6 and phi8. Structure 15:157-67.
• Jäälinoja HT. (2007) Electron cryo-microscopy studies of bacteriophage φ8 and archael virus SH1. Institute of Biotechnology, University of Helsinki, Helsinki. (Dissertation)
• Kallio, JM, Linder MB & Rouvinen J. (2007) Crystal structures of hydrophobin II in the presence of detergent implicate the formation of fibrils and monolayer films. J Biol Chem. 282:28733-28739.
• Kankaanpää H, Leiniö S, Olin M, Sjövall O, Meriluoto J & Lehtonen KK. (2007) Accumulation and depuration of cyanobacterial toxin nodularin and biomarker responses in the mussel Mytilus edulis. Chemosphere. 68:1210-1217.
• Karala A, Psarrakos P, Ruddock LW & Klappa P. (2007) Protein disulphide isomerases from C.elegans are equally efficient at thiol.disulphide exchange in simple peptide based systems but show differences in their reactivity towards protein substrates. Antioxid Redox Signal. 9:1815-1824.
• Karala AR & Ruddock LW. (2007) Does S-methyl methanesulfonate trap the thiol-disulfide state of proteins? Antioxid Redox Signal. 9:527-531.
• Katajamaa M & Oresic M. (2007) Data processing for mass spectrometry-based metabolomics. J Chromatogr A. 1158:318-328.
• Kauko A. (2007) Iron and oxidative stress: Structural studies on Dps-like peroxide resistance protein (Dpr) from Streptococcus suis. Department of Biochemistry and Food Chemistry, University of Turku, Turku. (Dissertation)
• Khan S & Vihinen M. (2007) Free in PMC Spectrum of disease-causing mutations in protein secondary structures. BMC Struct Biol. 7:56.
• Kidron H*, Repo S*, Johnson MS & Salminen TA. (2007) Functional classification of amino acid decarboxylases from the alanine racemase structural family by phylogenetic studies. Mol Biol Evol. 24:79-89.
• Kisko K, Szilvay GR, Vainio U, Linder MB & Serimaa R. (2007) Interactions of hydrophobin proteins in solution studied by small-angle X-ray scattering. Biophys J. 94:198-206.
• Kisko K, Szilvay GR, Vuorimaa E, Lemmetyinen H, Linder MB, Torkkeli M & Serimaa R. (2007) Self-assembled films of hydrophobin protein HFBIII from Trichoderma reesei. J Appl Cryst 40:355-360.
• Kiviranta PH, Leppänen J, Rinne VM, Suuronen T, Kyrylenko O, Kyrylenko S, Kuusisto E, Tervo AJ, Järvinen T, Salminen A, Poso A & Wallén EA. (2007) N-(3-(4-Hydroxyphenyl)-propenoyl)-amino acid tryptamides as SIRT2 inhibitors. Bioorg Med Chem Lett. 17(9):2448-51.
• Korhonen LE, Turpeinen M, Rahnasto M, Wittekindt C, Poso A, Pelkonen O, Raunio H & Juvonen RO. (2007) New potent and selective cytochrome P450 2B6 (CYP2B6) inhibitors based on three-dimensional quantitative structure-activity relationship (3D-QSAR) analysis. Br J Pharmacol. 150:932-42.
• Korhonen S-P, Tuppurainen K, Asikainen A, Laatikainen R & Peräkylä M. (2007) "SOMFA on Large Diverse Xenoestrogen Dataset: The Effect of Superposition Algorithms and External Regression Tools." QSAR Comb Sci. 26:809-819.
• Korhonen S-P. (2007) FLUFF-BALL, a fuzzy superposition and QSAR technique. Department of Biosciences / Chemistry, University of Kuopio, Kuopio. (Dissertation)
• Koskela H, Heikkinen O, Kilpeläinen I & Heikkinen S. (2007) Rapid and accurate processing method for amide proton exchange rate measurement in proteins. Journal of Biomolecular NMR. 37:313-320.
• Koskinen JO, Vainionpää R, Meltola N, Soukka J, Hänninen PE, Soini AE. (2007) Rapid Method for Detection fo Influenza A and B Virus Antigens by Use of a Two-Photon Excitation Assay Technique and Dry-Chemistry Reagents. Journal of Clinical Microbiology. 45:11.
• Koskiniemi H, Metsä-Ketelä M, Dobritzsch D, Kallio P, Korhonen H, Mäntsälä P, Schneider G & Niemi J. (2007) Crystal structures of two aromatic hydroxylases involved in the early tailoring steps of angucycline biosynthesis. J Mol Biol. 372:633-48.
• Kostiainen MA, Szilvay GR, Lehtinen J, Smith DK, Linder MB, Urtti A & Ikkala O. (2007) Precisely defined protein-polymer conjugates: construction of synthetic DNA binding domains on proteins by using multivalent dendrons. ACS Nano. 1:103-113.
• Kumar D, Srikanth R, Ahlfors H, Lahesmaa R & Rao KV. (2007) Capturing cell-fate decisions from the molecular signatures of a receptor-dependent signaling response. Mol Syst Biol. 3:150.
• Kuokkanen E, Smith W, Mäkinen M, Tuominen H, Puhka M, Jokitalo E, Duvet S, Berg T & Heikinheimo P. (2007) Characterisation and subcellular localisation of human neutral class II{alpha}-mannosidase. Glycobiology. 17(10):1084-93.
• Kurkela M, Patana AS, Mackenzie PI, Court MH, Tate CG, Hirvonen J, Goldman A & Finel M. (2007) Interactions with other human UDP-glucuronosyltransferases attenuate the consequences of the Y485D mutation on the activity and substrate affinity of UGT1A6. Pharmacogenet Genomics. 17:115-26.
• Kurppa K, Jiang H, Szilvay GR, Nasibulin AG, Kauppinen EI & Linder MB. (2007) Controlled hybrid nanostructures via protein mediated non-covalent functionalization of carbon nanotubes. Angewandte Chem, International ed. 46:6446-6449.
• Käpylä J*, Pentikäinen OT*, Nyrönen T, Nissinen L, Lassander S, Jokinen J, Lahti M, Marjamäki A, Johnson MS & Heino J. (2007) A small molecule designed to target MIDAS in the alpha2I domain inhibits integrin function. J Med Chem. 50:2742-2746.
• Lad Y, Kiema T, Jiang P, Pentikäinen OT, Coles CH, Campbell ID, Calderwood DA & Ylänne J. (2007) Structure of three tandem filamin domains reveals auto-inhibition of ligand binding. EMBO Journal. 26:3993-4004.
• Laitinen OH, Nordlund HR, Hytönen VP & Kulomaa MS. (2007) Brave new (strept)avidins in biotechnology, Trends in Biotechnol. 25:269-277.
• Laurila JM, Xhaard H, Ruuskanen JO, Rantanen MJ, Karlsson HK, Johnson MS & Scheinin M. (2007) The second extracellular loop of alpha(2A)-adrenoceptors contributes to the binding of yohimbine analogues. Br J Pharmacol. 151:1293-304.
• Lehtonen A*, Ahlfors H*, Veckman V, Miettinen M, Lahesmaa R* & Julkunen I*. (2007) Gene expression profiling during differentiation of human monocytes to macrophages or dendritic cells. J Leukoc Biol. 82:710-20.
• Leppänen VM, Tossavainen H, Permi P, Lehtiö L, Rönnholm G, Goldman A, Kilpeläinen I & Pihlajamaa T. (2007) Crystal Structure of the N-terminal NC4 Domain of Collagen IX, a Zinc Binding Member of the Laminin-Neurexin-Sex Hormone Binding Globulin (LNS) Domain Family. J Biol Chem. 282:23219-30.
• Lintala M, Allahverdiyeva Y, Kidron H, Piippo M, Battchikova N, Suorsa M, Rintamäki E, Salminen TA, Aro EM & Mulo P. (2007) Structural and functional characterization of ferredoxin-NADP+-oxidoreductase using knock-out mutants of Arabidopsis. Plant J. 6:1041-52.
• Louhivuori M, Otten R, Salminen T & Annila A. (2007) Evidence of molecular alignment fluctuations in aqueous dilute liquid crystalline media. J Biomol NMR. 39:141-52.
• Lund R*, Pykäläinen M*, Naumanen T, Dixon C, Chen Z, Ahlfors H, Tuomela S, Tahvanainen J, Scheinin J, Henttinen T, Rasool O & Lahesmaa R. (2007) Genome wide identification of novel genes involved in early Th1 and Th2 cell differentiation J. Immunol. 178:3648-60.
• Malinen AM, Belogurov GA, Baykov AA & Lahti R. (2007) Na⁺-pyrophosphatase: A novel primary sodium pump. Biochemistry 46:8872-8878.
• Mannonen L, Nikula T, Haveri A, Reinikainen A, Vuola JM, Lahesmaa R & Puolakkainen M. (2007) Upregulation of host cell genes during interferon-gamma induced persistent Chlamydia pneumoniae infection in HL cells. J Inf Dis. 195:212-9.
• Matero S, Pajander J, Soikkeli AM, Reinikainen SP, Lahtela-Kakkonen M, Korhonen O, Ketolainen J & Poso A. (2007) Predicting the drug concentration in starch acetate matrix tablets from ATR-FTIR spectra using multi-way methods. Anal Chim Acta. 595:190-7.
• Maunula S, Bjorkqvist J, Slotte JP & Ramstedt B. (2007) Differences in the domain forming properties of N-palmitoylated neutral glycosphingolipids in bilayer membranes. Biochim Biophys Acta. 1768:336-45.
• Mullin M, Lightfoot K, Clarke R, Miller M, Lahesmaa R & Cantrell D. (2007) The RhoA transcriptional program in pre-T cells. FEBS Lett. 581:4309-17.
• Nagy E, Balogi Z, Gombos I, Åkerfelt M, Björkbom A, Balogh G, Török Z, Maslyanko A, Lisowska K, JP Slotte, Sistonen L, Horváth I & Vígh L. (2007) Hyperfluidization-coupled membrane microdomain reorganization is linked to activation of the heat shock protein response in a murine melanoma cell line. Proc Natl Acad Sci USA. 104:7945-50.
• Namslauer A, Lepp H, Brändén M, Jasaitis A, Verkhovsky MI & Brzezinski P. (2007) Plasticity of proton pathway structure and water coordination in cytochrome c oxidase. J Biol Chem. 282:15148-15158.
• Niemi M, Jylhä S, Laukkanen M-L, Söderlund H, Mäkinen-Kiljunen S, Kallio JM, Hakulinen N, Haahtela T, Takkinen K & Rouvinen J. (2007) Molecular interactions between a recombinant IgE antibody and the b-lactoglobulin allergen. Structure. 15:1413-1421.
• Niiranen L, Espelid S, Karlsen CR, Mustonen M, Paulsen SM, Heikinheimo P & Willassen N-P. (2007) Comparative expression study to increase the solubility of cold adapted Vibrio proteins in Escherichia coli. Protein Expression and Purification. 52:210-218.
• Nybom SMK, Salminen SJ & Meriluoto JAO. (2007) Removal of microcystin-LR by strains of metabolically active probiotic bacteria. FEMS Microbiology Letters. 270:27-33.
• Nylund M, Fortelius C, Palonen EK, Molotkovsky JG & Mattjus P. (2007) Membrane curvature effects on glycolipid transfer protein activity. Langmuir. 23:11726-33.
• Oksanen E, Ahonen A-K, Tuominen H, Tuominen V, Lahti R, Goldman A & Heikinheimo P. (2007) A complete structural description of the catalytic cycle of yeast pyrophosphatase. Biochemistry. 46:1228-1239.
• Ollila J & Vihinen M. (2007) Immunological systems biology: gene expression analysis of B-cell development in Ramos B-cells. Mol Immunol. 44:3537-51.
• Onstad GD, Strauch S, Meriluoto J, Codd GA & von Gunten U. (2007) Selective oxidation of key functional groups in cyanotoxins during drinking water ozonation. Environmental Science & Technology. 41:4397-4404.
• Ortutay C, Siermala M & Vihinen M. (2007) ImmTree: database of evolutionary relationships of genes and proteins in the human immune system. Immunome Res. 3:4.
• Ortutay C, Siermala M & Vihinen M. (2007) Molecular characterization of the immune system: emergence of proteins, processes, and domains. Immunogenetics. 59:333-48.
• Paavilainen VO, Hellman M, Helfer E, Bovellan M, Annila A, Carlier MF, Permi P & Lappalainen P. (2007) Structural basis and evolutionary origin of actin filament capping by twinfilin. Proc Natl Acad Sci U S A. 104:3113-8.
• Pajunen M, Turakainen H, Poussu E, Peranen J, Vihinen M & Savilahti H. (2007) High-precision mapping of protein protein interfaces: an integrated genetic strategy combining en masse mutagenesis and DNA-level parallel analysis on a yeast two-hybrid platform. Nucleic Acids Res. 35:103-106.
• Palosuo T, Reinikka-Railo H, Kautiainen H, Alenius H, Kalkkinen N, Kulomaa M, Reunala T & Turjanmaa K. (2007) Latex allergy: the sum quantity of four major allergens shows the allergenic potential of medical gloves. Allergy. 62:781-786.
• Parkkinen T, Koivula A, Vehmaanperä J & Rouvinen J. (2007) Preliminary X-ray analysis of cellobiohydrolase Cel7B from Melanocarpus albomyces. Acta Cryst F. 63:754-757.
• Patana AS, Kurkela M, Goldman A & Finel M. (2007) The human UDP-glucuronosyltransferase: identification of key residues within the nucleotide-sugar binding site. Mol Pharmacol. 72:604-11.
• Permyakov SE, Nazipova AA, Denesyuk AI, Bakunts AG, Zinchenko DV, Lipkin VM, Uversky VN, Permyakov EA. (2007) Recoverin as a redox-sensitive protein. J Proteome Res. 6:1855-1863.
• Pittis MG, Montalvo AE, Heikinheimo P, Sbaragli M, Balducci C, Van Maldergem L, Filocamo M, Bembi B & Beccari, T. (2007) Funtional characterization of four novel MAN2B1 mutations causing juvenile onset alpha-mannosidosis. Clin Chim Acta. 375:136-9.
• Purmonen M, Valjakka J, Takkinen K, Laitinen T & Rouvinen J. (2007) Molecular dynamics studies on thermostability of family 11 xylanases. Prot Eng Des Select. 20:551-559.
• Rahnasto M, Wittekindt C, Juvonen RO, Turpeinen M, Petsalo A, Pelkonen O, Poso A, Stahl G, Höltje HD & Raunio H. (2007) Identification of inhibitors of the nicotine metabolising CYP2A6 enzyme-an in silico approach. Pharmacogenomics J. (in press)
• Ramstedt B & Slotte JP. (2007) Sphingolipids and the formation of sterol-enriched ordered membrane domains. Biochim Biophys Acta. 1758:1945-56.
• Rannikko K, Ortutay C & Vihinen M. (2007) Immunity genes and their orthologs: a multi-species database. Int Immunol. 19:1361-70.
• Rantanen MK, Lehtiö L, Patana A-S, Kurkela M, Goldman A & Finel, M. (2007) The Human UDP-Glucuronosyltransferase: Identification of Key Residues within the Nucleotide-Sugar Binding Site. Mol. Pharmacol. 72:604-611.
• Rantanen MK, Lehtiö L, Rajagopal L, Rubens CE, Goldman A. (2007) Structure of Streptococcus agalactiae serine/threonine phosphatase. The subdomain conformation is coupled to the binding of a third metal ion. FEBS J. 274:3128-37.
• Rantanen,MK, Lehtiö L, Rajagopal L, Rubens CE & Goldman A. (2007) Structure of the Streptococcus agalactiae family II inorganic pyrophosphatase at 2.70 Å resolution, Acta Cryst D. 63:738-743.
• Ras R, Ruotsalainen T, Laurikainen K, Linder MB & Ikkala O. (2007) Hollow nanoparticle nanotubes with a nanoscale brick wall structure of clay mineral platelets. Chemical Communications. 13:1366-1368.
• Rautajoki K, Marttila E, Nyman T & Lahesmaa R. (2007) IL-4 inhibits Caspase-3 by regulating several proteins in the Fas pathway during the initial stages of human Th2 cell differentiation. Mol Cell Proteomics. 6:238-251.
• Raykhel I, Alanen H, Salo K, Jurvansuu J, Nguyen VD, Latva-Ranta M & Ruddock L. (2007) A molecular specificity code for the three mammalian KDEL receptors. J Cell Biol. 179:1193-1204.
• Rinne J, Albarran B, Jylhävä J, Ihalainen TO, Kankaanpää P, Hytönen VP, Stayton PS, Kulomaa MS & Vihinen-Ranta M. (2007) Internalization of novel non-viral vector TAT-streptavidin into human cells. BMC Biotechnol. 7:1.
• Rodriguez EM, Acero JL, Spoof L & Meriluoto J. (2007) Oxidation of MC-LR and -RR with chlorine and potassium permanganate: toxicity of the reaction products. Water Research. 42:1744-52.
• Rodríguez E, Majado ME, Meriluoto J & Acero JL. (2007) Oxidation of microcystins by permanganate: Reaction kinetics and implications for water treatment. Water Research. 41:102-110.
• Rovio S, Yli-Kauhaluoma J & Sirén H. (2007) Determination of neutral carbohydrates by capillary zone electrophoresis with direct UV detection. Electrophoresis. 28:3129-3135.
• Saarinen S, Kato H, Uchiyama T, Miyoshi-Akiyama T & Papageorgiou AC. (2007) Crystal structure of Streptococcus dysgalactiae-derived mitogen reveals a zinc-binding site and alterations in TcR binding. J Mol Biol. 373:1089-1097.
• Samarghitean C, Valiaho J & Vihinen M. (2007) Free in PMC IDR knowledge base for primary immunodeficiencies. Immunome Res. 3:6.
• Savolainen J, Nieminen K, Laaksonen K, Laiho T, Jacobsen L, Lahesmaa R, Terho EO & Valovirta E. (2007) Allercen-induced in vitro expression of IL-18, SLAM and GATA-3 mRNA in PBMC during sublingual immunotherapy. Allergy. 62:949-53.
• Semenova MM, Maki-Hokkonen AM, Cao J, Komarovski V, Forsberg KM, Koistinaho M, Coffey ET & Courtney MJ. (2007) Rho mediates calcium-dependent activation of p38alpha and subsequent excitotoxic cell death. Nat Neurosci. 10:436-43.
• Sharma V, Annila A. (2007) Natural process - natural selection. Biophys Chem. 127:123-8.
• Siletsky SA, Belevich I, Jasaitis A, Konstantinov AA, Wikström M, Soulimane T & Verkhovsky MI. (2007) Time-resolved single-turnover of ba3 oxidase from Thermus thermophilus. Biochim Biophys Acta. 1767:1383-92.
• Sipia V, Kankaanpaa H, Peltonen H, Vinni M & Meriluoto J. (2007) Transfer of nodularin to three-spined stickleback (Gasterosteus aculeatus L.), herring (Clupea harengus L.), and salmon (Salmo salar L.) in the northern Baltic Sea. Ecotoxicol Environ Saf. 66:421-5.
• Sjekloca L, Pudas R, Sjöblom B, Konarev P, Carugo O, Rybin V, Kiema TR, Svergun D, Ylänne J & Djinovic Carugo K. (2007) Crystal structure of human filamin C domain 23 and small angle scattering model for filamin C 23-24 dimer. J Mol Biol. 368:1011-23.
• Slotte JP & Ramstedt B. (2007) The functional role of sphingomyelin in cell membranes. Eur J Lipid Sci Technol. 109:977-981.
• Strandman S, Zarembo A, Darinskii AA, Löflund B, Butcher SJ & Tenhu H. (2007) Self-assembling of star-like amphiphilic block copolymers with polyelectrolyte blocks. Effect of pH. Polymer. 48:7008-7016.
• Sultana A, Alexeev I, Kursula I, Mäntsälä P, Niemi J & Schneider G. (2007) Structure determination by multiwavelength anomalous diffraction of aclacinomycin oxidoreductase: indications of multidomain pseudomerohedral twinning. Acta Cryst D. 63:149-159.
• Sysi-Aho M, Katajamaa M, Yetukuri L & Oresic M. (2007) Normalization method for metabolomics data using optimal selection of multiple internal standards. BMC Bioinformatics. 8:e93.
• Szilvay GR, Kisko K, Serimaa R & Linder MB. (2007) The relation between solution association and surface activity of the hydrophobin HFBI from Trichoderma reesei. FEBS Letters. 581:2721-2726.
• Szilvay GR, Paananen A, Laurikainen K, Vuorimaa E, Lemmetyinen H, Peltonen J & Linder MB. (2007) Self-assembled hydrophobin protein films at the air-water interface: structural analysis and molecular engineering. Biochemistry 46:2345-2354.
• Szilvay GR. (2007) Self-assembly of hydrophobin proteins from the fungus Trichoderma reesei. VTT Technical Research Center of Finland and Division of Biology and Institute of Biotechnology, University of Helsinki. (Dissertation)
• Tammenkoski M, Moiseev VM, Lahti M, Ugochukwu E, Brondijk TH, White SA, Lahti R & Baykov AA. (2007) Kinetic and mutational analyses of the major cytosolic exopolyphosphatase from Saccharomyces cerevisiae. J Biol Chem. 282:9302-11.
• Tammenkoski M. (2007) One bond - many enzymes: Functional studies of three enzymes hydrolyzing the phosphoanhydride bond. Department of Biochemistry and Food Chemistry, University of Turku, Turku. (Dissertation)
• Tammiruusu A, Penttilä T, Lahesmaa R, Sarvas M, Puolakkainen M & Vuola JM. (2007) Intranasal administration of chlamydial outer protein N (CopN) induces protection against pulmonary Chlamydia pneumoniae infection in a mouse model. Vaccine. 25:283-90.
• Toriseva M, Ala-aho R, Karvinen J, Baker AH, Marjomäki V, Heino J & Kähäri VM (2007) Collagenase-3 (MMP-13) enhances collagen gel contraction and cell survival in collagen by adult skin fibroblasts. J Invest Dermatol. 127:49-59.
• Tulla M, Huhtala M, Jäälinoja J, Käpylä J, Farndale RW, Ala-Kokko L, Johnson MS & Heino J. (2007) Analysis of an ascidian integrin provides new insight into early evolution of collagen recognition. FEBS Lett. 581:2434-40.
• Tulla M. (2007) Collagen receptor integrins: evolution, ligand binding selectivity and the effect of activation. Department of Biological and Environmental Science, University of Jyväskylä, Jyväskylä. (Dissertation)
• Tuuf J & Mattjus P. (2007) Human glycolipid transfer protein-Intracellular localization and effects on the sphingolipid synthesis. Biochim Biophys Acta. 1771:11:1353-1363.
• Vainio MJ & Johnson MS. (2007) Generating Conformer Ensembles Using a Multiobjective Genetic Algorithm. J Chem Inf Model. 47:2462-74.
• Verma D, Srikanth R, Ahlfors H, Lahesmaa R & Rao K. (2007) Capturing cell-fate decisions from the molecular signatures of a receptor-dependent signaling response. Molecular Systems Biology. 3:150.
• Voutilainen SP, Boer H, Linder MB, Puranen T, Rouvinen J, Vehmaanperä J & Koivula A. (2007) Heterologous expression of Melanocarpus albomyces cellobiohydrolase Cel7B, and random mutagenesis and screening to improve its thermostability. Enzyme Microbiol Tech. 41:234-243.
• Vuoristo M, Vihinen P, Vlaykova T, Nylund C, Heino J & Pyrhönen S. (2007)
• Vähämaa H, Ojala P, Pahikkala T, Nevalainen O, Lahesmaa R & Aittokallio T. (2007) Computer-assisted identification of multi-trace electrophoretic patterns in differential display experiments. Electrophoresis. 28:879-93.
• Wang E, Koutsioulis D, Leiros H-K, Andersen OA, Bouriotis V, Hough E & Heikinheimo P. (2007) Structure of Alkaline Phosphatase from the Antarctic Bacterium TAB5. JMB. 366:318-1331.
• Weckstrom K & Papageorgiou AC. (2007) Lower consolute boundaries of the nonionic surfactant C8E5 in aqueous alkali halide solutions. An approach to reproduce the effects of alkali halides on the cloud-point temperature. J Coll Interf Sci. 310:151-162.
• Wikström M & Verkhovsky MI. (2007) The mechanism and energetics of proton-pumping by the heme-copper oxidases. Biochim Biophys Acta. 1767:1200-1214.
• Würtz P & Permi P. (2007) SESAME-HSQC for simultaneous measurement of NH and CH scalar and residual dipolar couplings. Magn Reson Chem. 45:289-95.
• Würtz P, Aitio O, Hellman M & Permi P. (2007) Simultaneous detection of amide and methyl correlations using a time shared NMR experiment: application to binding epitope mapping. J Biomol NMR. 39:97-105.
• Yu A, Kallistova, Kevbrina MV, Nekrasova VK, Shnyrev NA, Einola J-KM, Kulomaa MS, Rintala JA & Nozhevnikova AN. (2007) Enumeration of Methanotrophic Bacteria in the Cover Soil of an Aged Municipal Landfill. Microb Ecol. 54:637-645.
• Zhao J, Hayashi T, Saarinen S, Papageorgiou AC, Kato H, Imanishi K, Kirikae T, Abe R, Uchiyama T & Miyoshi-Akiyama T. (2007) Cloning, expression and characterization of the superantigen streptococcal pyrogenic exotoxin-G from Streptococcus dysgalactiae. Infect. Immun. 75:1721-1729.
• van Lith M, Karala A-R, Bown D, Gathouse JA, Ruddock LW, Saunders PTK & Benham AM. (2007) A developmentally regulated chaperone complex for the ER of male haploid germ cells. Mol Cell Biol. 18:2795-2804.
Increased gene expression levels of collagen receptor integrins are associated with decreased survival parameters in patients with advanced melanoma. Melanoma Research. 17: 215-223.

* = equal contribution