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tampereen yliopisto: lääketieteen ja biotieteiden tiedekunta: julkaisut:
Lääketieteen ja biotieteiden tiedekuntaTampereen yliopisto BioMediTech

IBT julkaisut 2012

HUOMIO: Tämä luettelo ei ole ehdottoman täydellinen, koska se on koostettu automaattisesti PubMed-tietokannasta. Sama julkaisu voi esiintyä kahteen tai useampaan kertaan, koska aineisto koostetaan tutkimusryhmittäin. Luettelo voi myös sisältää artikkeita, jotka eivät ole IBT:n tutkijoiden kirjoittamia johtuen samannimisistä kirjoittajista.
Bioinformatics
Mauno Vihinen - Bioinformatics Group
Byrne M, Fokkema IF, Lancaster O, Adamusiak T, Ahonen-Bishopp A, Atlan D, Béroud C, Cornell M, Dalgleish R, Devereau A, Patrinos GP, Swertz MA, Taschner PE, Thorisson GA, Vihinen M, Brookes AJ, Muilu J
VarioML framework for comprehensive variation data representation and exchange.
BMC Bioinformatics 2012 ;13254
PMID

Vihinen M
How to evaluate performance of prediction methods? Measures and their interpretation in variation effect analysis.
BMC Genomics 2012 ;13 Suppl 4S2
PMID

Patrinos GP, Smith TD, Howard H, Al-Mulla F, Chouchane L, Hadjisavvas A, Hamed SA, Li XT, Marafie M, Ramesar RS, Ramos FJ, de Ravel T, El-Ruby MO, Shrestha TR, Sobrido MJ, Tadmouri G, Witsch-Baumgartner M, Zilfalil BA, Auerbach AD, Carpenter K, Cutting GR, Dung VC, Grody W, Hasler J, Jorde L, Kaput J, Macek M, Matsubara Y, Padilla C, Robinson H, Rojas-Martinez A, Taylor GR, Vihinen M, Weber T, Burn J, Qi M, Cotton RG, Rimoin D,
Human Variome Project country nodes: documenting genetic information within a country.
Hum Mutat 2012 ;33(11)1513-9
PMID

Rasila TS, Vihinen M, Paulin L, Haapa-Paananen S, Savilahti H
Flexibility in MuA transposase family protein structures: functional mapping with scanning mutagenesis and sequence alignment of protein homologues.
PLoS One 2012 ;7(5)e37922
PMID

Ortutay C, Vihinen M
Conserved and quickly evolving immunome genes have different evolutionary paths.
Hum Mutat 2012 ;33(10)1456-63
PMID

Olatubosun A, Väliaho J, Härkönen J, Thusberg J, Vihinen M
PON-P: integrated predictor for pathogenicity of missense variants.
Hum Mutat 2012 ;33(8)1166-74
PMID

Ali H, Olatubosun A, Vihinen M
Classification of mismatch repair gene missense variants with PON-MMR.
Hum Mutat 2012 ;33(4)642-50
PMID

Vihinen M, den Dunnen JT, Dalgleish R, Cotton RG
Guidelines for establishing locus specific databases.
Hum Mutat 2012 ;33(2)298-305
PMID

Celli J, Dalgleish R, Vihinen M, Taschner PE, den Dunnen JT
Curating gene variant databases (LSDBs): toward a universal standard.
Hum Mutat 2012 ;33(2)291-7
PMID

Teittinen KJ, Kärkkäinen P, Salonen J, Rönnholm G, Korkeamäki H, Vihinen M, Kalkkinen N, Lohi O
Nucleolar proteins with altered expression in leukemic cell lines.
Leuk Res 2012 ;36(2)232-6
PMID

Biotechnology
Vesa Hytönen - Protein Dynamics
Markku Kulomaa - Molecular Biotechnology
Saeger J, Hytönen VP, Klotzsch E, Vogel V
GFP's mechanical intermediate states.
PLoS One 2012 ;7(10)e46962
PMID

Albers WM, Pelto JM, Suspène C, Määttä JA, Yassar A, Hytönen VP, Vikholm-Lundin IM, Tappura K
Structural and functional characteristics of chimeric avidins physically adsorbed onto functionalized polythiophene thin films.
ACS Appl Mater Interfaces 2012 ;4(8)4067-77
PMID

Durdagi S, Vullo D, Pan P, Kähkönen N, Määttä JA, Hytönen VP, Scozzafava A, Parkkila S, Supuran CT
Protein-protein interactions: inhibition of mammalian carbonic anhydrases I-XV by the murine inhibitor of carbonic anhydrase and other members of the transferrin family.
J Med Chem 2012 ;55(11)5529-35
PMID

Leppiniemi J, Grönroos T, Määttä JA, Johnson MS, Kulomaa MS, Hytönen VP, Airenne TT
Structure of bradavidin-C-terminal residues act as intrinsic ligands.
PLoS One 2012 ;7(5)e35962
PMID

Koho T, Mäntylä T, Laurinmäki P, Huhti L, Butcher SJ, Vesikari T, Kulomaa MS, Hytönen VP
Purification of norovirus-like particles (VLPs) by ion exchange chromatography.
J Virol Methods 2012 ;181(1)6-11
PMID

Niederhauser B, Siivonen J, Määttä JA, Jänis J, Kulomaa MS, Hytönen VP
DNA family shuffling within the chicken avidin protein family - A shortcut to more powerful protein tools.
J Biotechnol 2012 ;157(1)38-49
PMID

Tamminen K, Huhti L, Koho T, Lappalainen S, Hytönen VP, Vesikari T, Blazevic V
A comparison of immunogenicity of norovirus GII-4 virus-like particles and P-particles.
Immunology 2012 ;135(1)89-99
PMID

Koho T, Huhti L, Blazevic V, Nurminen K, Butcher SJ, Laurinmäki P, Kalkkinen N, Rönnholm G, Vesikari T, Hytönen VP, Kulomaa MS
Production and characterization of virus-like particles and the P domain protein of GII.4 norovirus.
J Virol Methods 2012 ;179(1)1-7
PMID

Leppiniemi J, Grönroos T, Määttä JA, Johnson MS, Kulomaa MS, Hytönen VP, Airenne TT
Structure of bradavidin-C-terminal residues act as intrinsic ligands.
PLoS One 2012 ;7(5)e35962
PMID

Koho T, Mäntylä T, Laurinmäki P, Huhti L, Butcher SJ, Vesikari T, Kulomaa MS, Hytönen VP
Purification of norovirus-like particles (VLPs) by ion exchange chromatography.
J Virol Methods 2012 ;181(1)6-11
PMID

Niederhauser B, Siivonen J, Määttä JA, Jänis J, Kulomaa MS, Hytönen VP
DNA family shuffling within the chicken avidin protein family - A shortcut to more powerful protein tools.
J Biotechnol 2012 ;157(1)38-49
PMID

Koho T, Huhti L, Blazevic V, Nurminen K, Butcher SJ, Laurinmäki P, Kalkkinen N, Rönnholm G, Vesikari T, Hytönen VP, Kulomaa MS
Production and characterization of virus-like particles and the P domain protein of GII.4 norovirus.
J Virol Methods 2012 ;179(1)1-7
PMID

Cancer Groups
Jorma Isola - Cancer Biology
Anne Kallioniemi - Cancer Genomics
Tapio Visakorpi - Molecular Biology of Prostate Cancer
Hans Lilja - Prostate Cancer Biomarkers
Falck AK, Bendahl PO, Ingvar C, Isola J, Jönsson PE, Lindblom P, Lövgren K, Rennstam K, Fernö M, Rydén L
Analysis of and prognostic information from disseminated tumour cells in bone marrow in primary breast cancer: a prospective observational study.
BMC Cancer 2012 ;12403
PMID

Remes SM, Tuominen VJ, Helin H, Isola J, Arola J
Grading of neuroendocrine tumors with Ki-67 requires high-quality assessment practices.
Am J Surg Pathol 2012 ;36(9)1359-63
PMID

Partanen L, Staaf J, Tanner M, Tuominen VJ, Borg Å, Isola J
Amplification and overexpression of the ABCC3 (MRP3) gene in primary breast cancer.
Genes Chromosomes Cancer 2012 ;51(9)832-40
PMID

Lehmusvaara S, Erkkilä T, Urbanucci A, Waltering K, Seppälä J, Larjo A, Tuominen VJ, Isola J, Kujala P, Lähdesmäki H, Kaipia A, Tammela TLj, Visakorpi T
Chemical castration and anti-androgens induce differential gene expression in prostate cancer.
J Pathol 2012 ;227(3)336-45
PMID

Tuominen VJ, Tolonen TT, Isola J
ImmunoMembrane: a publicly available web application for digital image analysis of HER2 immunohistochemistry.
Histopathology 2012 ;60(5)758-67
PMID

Kallioniemi A
Bone morphogenetic protein 4-a fascinating regulator of cancer cell behavior.
Cancer Genet 2012 ;205(6)267-77
PMID

Pylkäs K, Vuorela M, Otsukka M, Kallioniemi A, Jukkola-Vuorinen A, Winqvist R
Rare copy number variants observed in hereditary breast cancer cases disrupt genes in estrogen signaling and TP53 tumor suppression network.
PLoS Genet 2012 ;8(6)e1002734
PMID

Pelttari LM, Kiiski J, Nurminen R, Kallioniemi A, Schleutker J, Gylfe A, Aaltonen LA, Leminen A, Heikkilä P, Blomqvist C, Bützow R, Aittomäki K, Nevanlinna H
A Finnish founder mutation in RAD51D: analysis in breast, ovarian, prostate, and colorectal cancer.
J Med Genet 2012 ;49(7)429-32
PMID

Solyom S, Aressy B, Pylkäs K, Patterson-Fortin J, Hartikainen JM, Kallioniemi A, Kauppila S, Nikkilä J, Kosma VM, Mannermaa A, Greenberg RA, Winqvist R
Breast cancer-associated Abraxas mutation disrupts nuclear localization and DNA damage response functions.
Sci Transl Med 2012 ;4(122)122ra23
PMID

Laurila EM, Sandström S, Rantanen LM, Autio R, Kallioniemi A
Both inhibition and enhanced expression of miR-31 lead to reduced migration and invasion of pancreatic cancer cells.
Genes Chromosomes Cancer 2012 ;51(6)557-68
PMID

Jin K, Kong X, Shah T, Penet MF, Wildes F, Sgroi DC, Ma XJ, Huang Y, Kallioniemi A, Landberg G, Bieche I, Wu X, Lobie PE, Davidson NE, Bhujwalla ZM, Zhu T, Sukumar S
The HOXB7 protein renders breast cancer cells resistant to tamoxifen through activation of the EGFR pathway.
Proc Natl Acad Sci U S A 2012 ;109(8)2736-41
PMID

Kimura T, Furusato B, Miki J, Yamamoto T, Hayashi N, Takahashi H, Kamata Y, van Leenders GJ, Visakorpi T, Egawa S
Expression of ERG oncoprotein is associated with a less aggressive tumor phenotype in Japanese prostate cancer patients.
Pathol Int 2012 ;62(11)742-8
PMID

Roine A, Tolvanen M, Sipiläinen M, Kumpulainen P, Helenius MA, Lehtimäki T, Vepsäläinen J, Keinänen TA, Häkkinen MR, Koskimäki J, Veskimäe E, Tuokko A, Visakorpi T, Tammela TL, Sioris T, Paavonen T, Lekkala J, Helle H, Oksala NK
Detection of smell print differences between nonmalignant and malignant prostate cells with an electronic nose.
Future Oncol 2012 ;8(9)1157-65
PMID

Choudhury AD, Eeles R, Freedland SJ, Isaacs WB, Pomerantz MM, Schalken JA, Tammela TL, Visakorpi T
The role of genetic markers in the management of prostate cancer.
Eur Urol 2012 ;62(4)577-87
PMID

Visakorpi T
Novel endocrine aspects of prostate cancer.
Mol Cell Endocrinol 2012 ;360(1-2)1-2
PMID

Lehmusvaara S, Erkkilä T, Urbanucci A, Waltering K, Seppälä J, Larjo A, Tuominen VJ, Isola J, Kujala P, Lähdesmäki H, Kaipia A, Tammela TLj, Visakorpi T
Chemical castration and anti-androgens induce differential gene expression in prostate cancer.
J Pathol 2012 ;227(3)336-45
PMID

Jalava SE, Urbanucci A, Latonen L, Waltering KK, Sahu B, Jänne OA, Seppälä J, Lähdesmäki H, Tammela TL, Visakorpi T
Androgen-regulated miR-32 targets BTG2 and is overexpressed in castration-resistant prostate cancer.
Oncogene 2012 ;31(41)4460-71
PMID

Waltering KK, Urbanucci A, Visakorpi T
Androgen receptor (AR) aberrations in castration-resistant prostate cancer.
Mol Cell Endocrinol 2012 ;360(1-2)38-43
PMID

Bryant RJ, Pawlowski T, Catto JW, Marsden G, Vessella RL, Rhees B, Kuslich C, Visakorpi T, Hamdy FC
Changes in circulating microRNA levels associated with prostate cancer.
Br J Cancer 2012 ;106(4)768-74
PMID

Urbanucci A, Marttila S, Jänne OA, Visakorpi T
Androgen receptor overexpression alters binding dynamics of the receptor to chromatin and chromatin structure.
Prostate 2012 ;72(11)1223-32
PMID

Jääskeläinen T, Makkonen H, Visakorpi T, Kim J, Roeder RG, Palvimo JJ
Histone H2B ubiquitin ligases RNF20 and RNF40 in androgen signaling and prostate cancer cell growth.
Mol Cell Endocrinol 2012 ;350(1)87-98
PMID

Urbanucci A, Sahu B, Seppälä J, Larjo A, Latonen LM, Waltering KK, Tammela TL, Vessella RL, Lähdesmäki H, Jänne OA, Visakorpi T
Overexpression of androgen receptor enhances the binding of the receptor to the chromatin in prostate cancer.
Oncogene 2012 ;31(17)2153-63
PMID

Martens-Uzunova ES, Jalava SE, Dits NF, van Leenders GJ, Møller S, Trapman J, Bangma CH, Litman T, Visakorpi T, Jenster G
Diagnostic and prognostic signatures from the small non-coding RNA transcriptome in prostate cancer.
Oncogene 2012 ;31(8)978-91
PMID

Moul JW, Lilja H, Semmes OJ, Lance RS, Vessella RL, Fleisher M, Mazzola C, Sarno MJ, Stevens B, Klem RE, McDermed JE, Triebell MT, Adams TH
NADiA ProsVue prostate-specific antigen slope is an independent prognostic marker for identifying men at reduced risk of clinical recurrence of prostate cancer after radical prostatectomy.
Urology 2012 ;80(6)1319-25
PMID

Järås K, Adler B, Tojo A, Malm J, Marko-Varga G, Lilja H, Laurell T
Porous silicon antibody microarrays for quantitative analysis: measurement of free and total PSA in clinical plasma samples.
Clin Chim Acta 2012 ;41476-84
PMID

Augustsson P, Magnusson C, Nordin M, Lilja H, Laurell T
Microfluidic, label-free enrichment of prostate cancer cells in blood based on acoustophoresis.
Anal Chem 2012 ;84(18)7954-62
PMID

Ulmert D, Vickers AJ, Scher HI, Becker C, Iversen P, Frankel D, Jensen JK, Olesen TK, Lilja H
Rapid elimination kinetics of free PSA or human kallikrein-related peptidase 2 after initiation of gonadotropin-releasing hormone-antagonist treatment of prostate cancer: potential for rapid monitoring of treatment responses.
Clin Chem Lab Med 2012 ;50(11)1993-8
PMID

Carlsson S, Vickers AJ, Roobol M, Eastham J, Scardino P, Lilja H, Hugosson J
Prostate cancer screening: facts, statistics, and interpretation in response to the US Preventive Services Task Force Review.
J Clin Oncol 2012 ;30(21)2581-4
PMID

Ulmert D, Evans MJ, Holland JP, Rice SL, Wongvipat J, Pettersson K, Abrahamsson PA, Scardino PT, Larson SM, Lilja H, Lewis JS, Sawyers CL
Imaging androgen receptor signaling with a radiotracer targeting free prostate-specific antigen.
Cancer Discov 2012 ;2(4)320-7
PMID

Ankerst DP, Boeck A, Freedland SJ, Stephen Jones J, Cronin AM, Roobol MJ, Hugosson J, Kattan MW, Klein EA, Hamdy F, Neal D, Donovan J, Parekh DJ, Klocker H, Horninger W, Benchikh A, Salama G, Villers A, Moreira DM, Schröder FH, Lilja H, Vickers AJ, Thompson IM
Evaluating the Prostate Cancer Prevention Trial High Grade prostate cancer risk calculator in 10 international biopsy cohorts: results from the prostate biopsy collaborative group.
World J Urol 2012 ;
PMID

Evans-Axelsson S, Ulmert D, Örbom A, Peterson P, Nilsson O, Wennerberg J, Strand J, Wingårdh K, Olsson T, Hagman Z, Tolmachev V, Bjartell A, Lilja H, Strand SE
Targeting free prostate-specific antigen for in vivo imaging of prostate cancer using a monoclonal antibody specific for unique epitopes accessible on free prostate-specific antigen alone.
Cancer Biother Radiopharm 2012 ;27(4)243-51
PMID

Carlsson S, Vickers A, Lilja H, Hugosson J
Screening for prostate cancer.
Ann Intern Med 2012 ;156(7)539; author reply 540
PMID

Schröder FH, Hugosson J, Roobol MJ, Tammela TL, Ciatto S, Nelen V, Kwiatkowski M, Lujan M, Lilja H, Zappa M, Denis LJ, Recker F, Páez A, Määttänen L, Bangma CH, Aus G, Carlsson S, Villers A, Rebillard X, van der Kwast T, Kujala PM, Blijenberg BG, Stenman UH, Huber A, Taari K, Hakama M, Moss SM, de Koning HJ, Auvinen A,
Prostate-cancer mortality at 11 years of follow-up.
N Engl J Med 2012 ;366(11)981-90
PMID

Ulmert D, Kaboteh R, Fox JJ, Savage C, Evans MJ, Lilja H, Abrahamsson PA, Björk T, Gerdtsson A, Bjartell A, Gjertsson P, Höglund P, Lomsky M, Ohlsson M, Richter J, Sadik M, Morris MJ, Scher HI, Sjöstrand K, Yu A, Suurküla M, Edenbrandt L, Larson SM
A novel automated platform for quantifying the extent of skeletal tumour involvement in prostate cancer patients using the Bone Scan Index.
Eur Urol 2012 ;62(1)78-84
PMID

Ankerst DP, Boeck A, Freedland SJ, Thompson IM, Cronin AM, Roobol MJ, Hugosson J, Stephen Jones J, Kattan MW, Klein EA, Hamdy F, Neal D, Donovan J, Parekh DJ, Klocker H, Horninger W, Benchikh A, Salama G, Villers A, Moreira DM, Schröder FH, Lilja H, Vickers AJ
Evaluating the PCPT risk calculator in ten international biopsy cohorts: results from the Prostate Biopsy Collaborative Group.
World J Urol 2012 ;30(2)181-7
PMID

Végvári Á, Rezeli M, Sihlbom C, Häkkinen J, Carlsohn E, Malm J, Lilja H, Laurell T, Marko-Varga G
Molecular microheterogeneity of prostate specific antigen in seminal fluid by mass spectrometry.
Clin Biochem 2012 ;45(4-5)331-8
PMID

Roobol MJ, Schröder FH, Hugosson J, Jones JS, Kattan MW, Klein EA, Hamdy F, Neal D, Donovan J, Parekh DJ, Ankerst D, Bartsch G, Klocker H, Horninger W, Benchikh A, Salama G, Villers A, Freedland SJ, Moreira DM, Vickers AJ, Lilja H, Steyerberg EW
Importance of prostate volume in the European Randomised Study of Screening for Prostate Cancer (ERSPC) risk calculators: results from the prostate biopsy collaborative group.
World J Urol 2012 ;30(2)149-55
PMID

Vickers AJ, Lilja H
We need a better marker for prostate cancer. How about renaming PSA?
Urology 2012 ;79(2)254-5
PMID

Vickers AJ, Lilja H
PSA is dead, long live PSA.
Eur Urol 2012 ;61(3)467-8; discussion 469-70
PMID

Vickers AJ, Lilja H
Predicting prostate cancer many years before diagnosis: how and why?
World J Urol 2012 ;30(2)131-5
PMID

Klein RJ, Hallden C, Gupta A, Savage CJ, Dahlin A, Bjartell A, Manjer J, Scardino PT, Ulmert D, Wallström P, Vickers AJ, Lilja H
Evaluation of multiple risk-associated single nucleotide polymorphisms versus prostate-specific antigen at baseline to predict prostate cancer in unscreened men.
Eur Urol 2012 ;61(3)471-7
PMID

Vickers AJ, Roobol MJ, Lilja H
Screening for prostate cancer: early detection or overdetection?
Annu Rev Med 2012 ;63161-70
PMID

Ristiniemi N, Savage C, Bruun L, Pettersson K, Lilja H, Christensson A
Evaluation of a new immunoassay for cystatin C, based on a double monoclonal principle, in men with normal and impaired renal function.
Nephrol Dial Transplant 2012 ;27(2)682-7
PMID

Cellular Biology
Ari-Pekka Huovila - Cell Interactions
Herma Renkema - Biochemistry of Cell Signaling
Wortmann SB, Vaz FM, Gardeitchik T, Vissers LE, Renkema GH, Schuurs-Hoeijmakers JH, Kulik W, Lammens M, Christin C, Kluijtmans LA, Rodenburg RJ, Nijtmans LG, Grünewald A, Klein C, Gerhold JM, Kozicz T, van Hasselt PM, Harakalova M, Kloosterman W, Barić I, Pronicka E, Ucar SK, Naess K, Singhal KK, Krumina Z, Gilissen C, van Bokhoven H, Veltman JA, Smeitink JA, Lefeber DJ, Spelbrink JN, Wevers RA, Morava E, de Brouwer AP
Mutations in the phospholipid remodeling gene SERAC1 impair mitochondrial function and intracellular cholesterol trafficking and cause dystonia and deafness.
Nat Genet 2012 ;44(7)797-802
PMID

Mitochondrial Genetics
Howy Jacobs - Mitochondrial Gene Expression and Disease Group
Laurie Kaguni - Mitochondrial Biogenesis in Health and Disease
Alberto Sanz - Mitochondrial Gerontology and Age-related Diseases
Hans Spelbrink - Molecular Biology-Mitochondrial DNA maintenance
Cannino G, El-Khoury R, Pirinen M, Hutz B, Rustin P, Jacobs HT, Dufour E
Glucose modulates respiratory complex I activity in response to acute mitochondrial dysfunction.
J Biol Chem 2012 ;287(46)38729-40
PMID

Stefanatos R, Sriram A, Kiviranta E, Mohan A, Ayala V, Jacobs HT, Pamplona R, Sanz A
dj-1β regulates oxidative stress, insulin-like signaling and development in Drosophila melanogaster.
Cell Cycle 2012 ;11(20)3876-86
PMID

Chen S, Oliveira MT, Sanz A, Kemppainen E, Fukuoh A, Schlicht B, Kaguni LS, Jacobs HT
A cytoplasmic suppressor of a nuclear mutation affecting mitochondrial functions in Drosophila.
Genetics 2012 ;192(2)483-93
PMID

Schiff M, Bénit P, Jacobs HT, Vockley J, Rustin P
Therapies in inborn errors of oxidative metabolism.
Trends Endocrinol Metab 2012 ;23(9)488-95
PMID

Humphrey DM, Parsons RB, Ludlow ZN, Riemensperger T, Esposito G, Verstreken P, Jacobs HT, Birman S, Hirth F
Alternative oxidase rescues mitochondria-mediated dopaminergic cell loss in Drosophila.
Hum Mol Genet 2012 ;21(12)2698-712
PMID

Sanchez-Martinez A, Calleja M, Peralta S, Matsushima Y, Hernandez-Sierra R, Whitworth AJ, Kaguni LS, Garesse R
Modeling pathogenic mutations of human twinkle in Drosophila suggests an apoptosis role in response to mitochondrial defects.
PLoS One 2012 ;7(8)e43954
PMID

Chen S, Oliveira MT, Sanz A, Kemppainen E, Fukuoh A, Schlicht B, Kaguni LS, Jacobs HT
A cytoplasmic suppressor of a nuclear mutation affecting mitochondrial functions in Drosophila.
Genetics 2012 ;192(2)483-93
PMID

Peralta S, Clemente P, Sánchez-Martínez A, Calleja M, Hernández-Sierra R, Matsushima Y, Adán C, Ugalde C, Fernández-Moreno MÁ, Kaguni LS, Garesse R
Coiled coil domain-containing protein 56 (CCDC56) is a novel mitochondrial protein essential for cytochrome c oxidase function.
J Biol Chem 2012 ;287(29)24174-85
PMID

Stefanatos R, Sriram A, Kiviranta E, Mohan A, Ayala V, Jacobs HT, Pamplona R, Sanz A
dj-1β regulates oxidative stress, insulin-like signaling and development in Drosophila melanogaster.
Cell Cycle 2012 ;11(20)3876-86
PMID

Scialo F, Mallikarjun V, Stefanatos R, Sanz A
Regulation of Lifespan by the Mitochondrial Electron Transport Chain: Reactive Oxygen Species-Dependent and Reactive Oxygen Species-Independent Mechanisms.
Antioxid Redox Signal 2012 ;
PMID

Chen S, Oliveira MT, Sanz A, Kemppainen E, Fukuoh A, Schlicht B, Kaguni LS, Jacobs HT
A cytoplasmic suppressor of a nuclear mutation affecting mitochondrial functions in Drosophila.
Genetics 2012 ;192(2)483-93
PMID

Wortmann SB, Vaz FM, Gardeitchik T, Vissers LE, Renkema GH, Schuurs-Hoeijmakers JH, Kulik W, Lammens M, Christin C, Kluijtmans LA, Rodenburg RJ, Nijtmans LG, Grünewald A, Klein C, Gerhold JM, Kozicz T, van Hasselt PM, Harakalova M, Kloosterman W, Barić I, Pronicka E, Ucar SK, Naess K, Singhal KK, Krumina Z, Gilissen C, van Bokhoven H, Veltman JA, Smeitink JA, Lefeber DJ, Spelbrink JN, Wevers RA, Morava E, de Brouwer AP
Mutations in the phospholipid remodeling gene SERAC1 impair mitochondrial function and intracellular cholesterol trafficking and cause dystonia and deafness.
Nat Genet 2012 ;44(7)797-802
PMID

Lihavainen E, Mäkelä J, Spelbrink JN, Ribeiro AS
Mytoe: automatic analysis of mitochondrial dynamics.
Bioinformatics 2012 ;28(7)1050-1
PMID

Molecular Immunology
Dan Hultmark - Genetic Immunology
Marko Pesu - Immunoregulation
Mika Rämet - Experimental Immunology
Olli Silvennoinen - Molecular Immunology
van Mierlo JT, Bronkhorst AW, Overheul GJ, Sadanandan SA, Ekström JO, Heestermans M, Hultmark D, Antoniewski C, van Rij RP
Convergent evolution of argonaute-2 slicer antagonism in two distinct insect RNA viruses.
PLoS Pathog 2012 ;8(8)e1002872
PMID

Sampson CJ, Valanne S, Fauvarque MO, Hultmark D, Rämet M, Williams MJ
The RhoGEF Zizimin-related acts in the Drosophila cellular immune response via the Rho GTPases Rac2 and Cdc42.
Dev Comp Immunol 2012 ;38(1)160-8
PMID

Vanha-Aho LM, Kleino A, Kaustio M, Ulvila J, Wilke B, Hultmark D, Valanne S, Rämet M
Functional characterization of the infection-inducible peptide Edin in Drosophila melanogaster.
PLoS One 2012 ;7(5)e37153
PMID

Laurence A, Pesu M, Silvennoinen O, O'Shea J
JAK Kinases in Health and Disease: An Update.
Open Rheumatol J 2012 ;6232-44
PMID

Parikka M, Hammarén MM, Harjula SK, Halfpenny NJ, Oksanen KE, Lahtinen MJ, Pajula ET, Iivanainen A, Pesu M, Rämet M
Mycobacterium marinum causes a latent infection that can be reactivated by gamma irradiation in adult zebrafish.
PLoS Pathog 2012 ;8(9)e1002944
PMID

Teittinen KJ, Grönroos T, Parikka M, Junttila S, Uusimäki A, Laiho A, Korkeamäki H, Kurppa K, Turpeinen H, Pesu M, Gyenesei A, Rämet M, Lohi O
SAP30L (Sin3A-associated protein 30-like) is involved in regulation of cardiac development and hematopoiesis in zebrafish embryos.
J Cell Biochem 2012 ;113(12)3843-52
PMID

Taverniti V, Minuzzo M, Arioli S, Junttila I, Hämäläinen S, Turpeinen H, Mora D, Karp M, Pesu M, Guglielmetti S
In vitro functional and immunomodulatory properties of the Lactobacillus helveticus MIMLh5-Streptococcus salivarius ST3 association that are relevant to the development of a pharyngeal probiotic product.
Appl Environ Microbiol 2012 ;78(12)4209-16
PMID

Parikka M, Hammarén MM, Harjula SK, Halfpenny NJ, Oksanen KE, Lahtinen MJ, Pajula ET, Iivanainen A, Pesu M, Rämet M
Mycobacterium marinum causes a latent infection that can be reactivated by gamma irradiation in adult zebrafish.
PLoS Pathog 2012 ;8(9)e1002944
PMID

Patterson H, Saralahti A, Parikka M, Dramsi S, Trieu-Cuot P, Poyart C, Rounioja S, Rämet M
Adult zebrafish model of bacterial meningitis in Streptococcus agalactiae infection.
Dev Comp Immunol 2012 ;38(3)447-55
PMID

Teittinen KJ, Grönroos T, Parikka M, Junttila S, Uusimäki A, Laiho A, Korkeamäki H, Kurppa K, Turpeinen H, Pesu M, Gyenesei A, Rämet M, Lohi O
SAP30L (Sin3A-associated protein 30-like) is involved in regulation of cardiac development and hematopoiesis in zebrafish embryos.
J Cell Biochem 2012 ;113(12)3843-52
PMID

Teittinen KJ, Grönroos T, Parikka M, Rämet M, Lohi O
The zebrafish as a tool in leukemia research.
Leuk Res 2012 ;36(9)1082-8
PMID

Sampson CJ, Valanne S, Fauvarque MO, Hultmark D, Rämet M, Williams MJ
The RhoGEF Zizimin-related acts in the Drosophila cellular immune response via the Rho GTPases Rac2 and Cdc42.
Dev Comp Immunol 2012 ;38(1)160-8
PMID

Rämet M
The fruit fly Drosophila melanogaster unfolds the secrets of innate immunity.
Acta Paediatr 2012 ;101(9)900-5
PMID

Vanha-Aho LM, Kleino A, Kaustio M, Ulvila J, Wilke B, Hultmark D, Valanne S, Rämet M
Functional characterization of the infection-inducible peptide Edin in Drosophila melanogaster.
PLoS One 2012 ;7(5)e37153
PMID

Grönholm J, Kaustio M, Myllymäki H, Kallio J, Saarikettu J, Kronhamn J, Valanne S, Silvennoinen O, Rämet M
Not4 enhances JAK/STAT pathway-dependent gene expression in Drosophila and in human cells.
FASEB J 2012 ;26(3)1239-50
PMID

Valanne S, Kallio J, Kleino A, Rämet M
Large-scale RNAi screens add both clarity and complexity to Drosophila NF-κB signaling.
Dev Comp Immunol 2012 ;37(1)9-18
PMID

Rounioja S, Saralahti A, Rantala L, Parikka M, Henriques-Normark B, Silvennoinen O, Rämet M
Defense of zebrafish embryos against Streptococcus pneumoniae infection is dependent on the phagocytic activity of leukocytes.
Dev Comp Immunol 2012 ;36(2)342-8
PMID

Grönholm J, Vanhatupa S, Ungureanu D, Väliaho J, Laitinen T, Valjakka J, Silvennoinen O
Structure-function analysis indicates that sumoylation modulates DNA-binding activity of STAT1.
BMC Biochem 2012 ;1320
PMID

Laurence A, Pesu M, Silvennoinen O, O'Shea J
JAK Kinases in Health and Disease: An Update.
Open Rheumatol J 2012 ;6232-44
PMID

Kujala K, Paavola J, Lahti A, Larsson K, Pekkanen-Mattila M, Viitasalo M, Lahtinen AM, Toivonen L, Kontula K, Swan H, Laine M, Silvennoinen O, Aalto-Setälä K
Cell model of catecholaminergic polymorphic ventricular tachycardia reveals early and delayed afterdepolarizations.
PLoS One 2012 ;7(9)e44660
PMID

Bandaranayake RM, Ungureanu D, Shan Y, Shaw DE, Silvennoinen O, Hubbard SR
Crystal structures of the JAK2 pseudokinase domain and the pathogenic mutant V617F.
Nat Struct Mol Biol 2012 ;19(8)754-9
PMID

Gao X, Zhao X, Zhu Y, He J, Shao J, Su C, Zhang Y, Zhang W, Saarikettu J, Silvennoinen O, Yao Z, Yang J
Tudor staphylococcal nuclease (Tudor-SN) participates in small ribonucleoprotein (snRNP) assembly via interacting with symmetrically dimethylated Sm proteins.
J Biol Chem 2012 ;287(22)18130-41
PMID

Conti L, De Palma R, Rolla S, Boselli D, Rodolico G, Kaur S, Silvennoinen O, Niccolai E, Amedei A, Ivaldi F, Clerico M, Contessa G, Uccelli A, Durelli L, Novelli F
Th17 cells in multiple sclerosis express higher levels of JAK2, which increases their surface expression of IFN-γR2.
J Immunol 2012 ;188(3)1011-8
PMID

Grönholm J, Kaustio M, Myllymäki H, Kallio J, Saarikettu J, Kronhamn J, Valanne S, Silvennoinen O, Rämet M
Not4 enhances JAK/STAT pathway-dependent gene expression in Drosophila and in human cells.
FASEB J 2012 ;26(3)1239-50
PMID

Lahti AL, Kujala VJ, Chapman H, Koivisto AP, Pekkanen-Mattila M, Kerkelä E, Hyttinen J, Kontula K, Swan H, Conklin BR, Yamanaka S, Silvennoinen O, Aalto-Setälä K
Model for long QT syndrome type 2 using human iPS cells demonstrates arrhythmogenic characteristics in cell culture.
Dis Model Mech 2012 ;5(2)220-30
PMID

Rounioja S, Saralahti A, Rantala L, Parikka M, Henriques-Normark B, Silvennoinen O, Rämet M
Defense of zebrafish embryos against Streptococcus pneumoniae infection is dependent on the phagocytic activity of leukocytes.
Dev Comp Immunol 2012 ;36(2)342-8
PMID

Regenerative Medicine
Katriina Aalto-Setälä - Cardiology Group
Susanna Miettinen - Adult Stem Cell Group
Susanna Narkilahti - Neuro Group
Heli Skottman - Ophthalmology Group
Kujala K, Ahola A, Pekkanen-Mattila M, Ikonen L, Kerkelä E, Hyttinen J, Aalto-Setälä K
Electrical Field Stimulation with a Novel Platform: Effect on Cardiomyocyte Gene Expression but not on Orientation.
Int J Biomed Sci 2012 ;8(2)109-20
PMID

Ojala M, Rajala K, Pekkanen-Mattila M, Miettinen M, Huhtala H, Aalto-Setälä K
Culture conditions affect cardiac differentiation potential of human pluripotent stem cells.
PLoS One 2012 ;7(10)e48659
PMID

Kujala K, Paavola J, Lahti A, Larsson K, Pekkanen-Mattila M, Viitasalo M, Lahtinen AM, Toivonen L, Kontula K, Swan H, Laine M, Silvennoinen O, Aalto-Setälä K
Cell model of catecholaminergic polymorphic ventricular tachycardia reveals early and delayed afterdepolarizations.
PLoS One 2012 ;7(9)e44660
PMID

Pekkanen-Mattila M, Ojala M, Kerkelä E, Rajala K, Skottman H, Aalto-Setälä K
The effect of human and mouse fibroblast feeder cells on cardiac differentiation of human pluripotent stem cells.
Stem Cells Int 2012 ;2012875059
PMID

Lahti AL, Kujala VJ, Chapman H, Koivisto AP, Pekkanen-Mattila M, Kerkelä E, Hyttinen J, Kontula K, Swan H, Conklin BR, Yamanaka S, Silvennoinen O, Aalto-Setälä K
Model for long QT syndrome type 2 using human iPS cells demonstrates arrhythmogenic characteristics in cell culture.
Dis Model Mech 2012 ;5(2)220-30
PMID

Khanna-Jain R, Mannerström B, Vuorinen A, Sándor GK, Suuronen R, Miettinen S
Osteogenic differentiation of human dental pulp stem cells on β-tricalcium phosphate/poly (l-lactic acid/caprolactone) three-dimensional scaffolds.
J Tissue Eng 2012 ;3(1)2041731412467998
PMID

Waselau M, Patrikoski M, Juntunen M, Kujala K, Kääriäinen M, Kuokkanen H, Sándor GK, Vapaavuori O, Suuronen R, Mannerström B, von Rechenberg B, Miettinen S
Effects of bioactive glass S53P4 or beta-tricalcium phosphate and bone morphogenetic protein-2 and bone morphogenetic protein-7 on osteogenic differentiation of human adipose stem cells.
J Tissue Eng 2012 ;3(1)2041731412467789
PMID

Ahtiainen K, Sippola L, Nurminen M, Mannerström B, Haimi S, Suuronen R, Hyttinen J, Ylikomi T, Kellomäki M, Miettinen S
Effects of chitosan and bioactive glass modifications of knitted and rolled polylactide-based 96/4 L/D scaffolds on chondrogenic differentiation of adipose stem cells.
J Tissue Eng Regen Med 2012 ;
PMID

Sartoneva R, Haaparanta AM, Lahdes-Vasama T, Mannerström B, Kellomäki M, Salomäki M, Sándor G, Seppänen R, Miettinen S, Haimi S
Characterizing and optimizing poly-L-lactide-co-ε-caprolactone membranes for urothelial tissue engineering.
J R Soc Interface 2012 ;9(77)3444-54
PMID

Sarkanen JR, Vuorenpää H, Huttala O, Mannerström B, Kuokkanen H, Miettinen S, Heinonen T, Ylikomi T
Adipose stromal cell tubule network model provides a versatile tool for vascular research and tissue engineering.
Cells Tissues Organs 2012 ;196(5)385-97
PMID

Sarkanen JR, Kaila V, Mannerström B, Räty S, Kuokkanen H, Miettinen S, Ylikomi T
Human adipose tissue extract induces angiogenesis and adipogenesis in vitro.
Tissue Eng Part A 2012 ;18(1-2)17-25
PMID

Kapucu FE, Tanskanen JM, Mikkonen JE, Ylä-Outinen L, Narkilahti S, Hyttinen JA
Burst analysis tool for developing neuronal networks exhibiting highly varying action potential dynamics.
Front Comput Neurosci 2012 ;638
PMID

Ylä-Outinen L, Joki T, Varjola M, Skottman H, Narkilahti S
Three-dimensional growth matrix for human embryonic stem cell-derived neuronal cells.
J Tissue Eng Regen Med 2012 ;
PMID

Juuti-Uusitalo K, Vaajasaari H, Ryhänen T, Narkilahti S, Suuronen R, Mannermaa E, Kaarniranta K, Skottman H
Efflux protein expression in human stem cell-derived retinal pigment epithelial cells.
PLoS One 2012 ;7(1)e30089
PMID

Ilmarinen T, Laine J, Juuti-Uusitalo K, Numminen J, Seppänen-Suuronen R, Uusitalo H, Skottman H
Towards a defined, serum- and feeder-free culture of stratified human oral mucosal epithelium for ocular surface reconstruction.
Acta Ophthalmol 2012 ;
PMID

Subrizi A, Hiidenmaa H, Ilmarinen T, Nymark S, Dubruel P, Uusitalo H, Yliperttula M, Urtti A, Skottman H
Generation of hESC-derived retinal pigment epithelium on biopolymer coated polyimide membranes.
Biomaterials 2012 ;33(32)8047-54
PMID

Ylä-Outinen L, Joki T, Varjola M, Skottman H, Narkilahti S
Three-dimensional growth matrix for human embryonic stem cell-derived neuronal cells.
J Tissue Eng Regen Med 2012 ;
PMID

Pekkanen-Mattila M, Ojala M, Kerkelä E, Rajala K, Skottman H, Aalto-Setälä K
The effect of human and mouse fibroblast feeder cells on cardiac differentiation of human pluripotent stem cells.
Stem Cells Int 2012 ;2012875059
PMID

Juuti-Uusitalo K, Vaajasaari H, Ryhänen T, Narkilahti S, Suuronen R, Mannermaa E, Kaarniranta K, Skottman H
Efflux protein expression in human stem cell-derived retinal pigment epithelial cells.
PLoS One 2012 ;7(1)e30089
PMID

Onnela N, Savolainen V, Juuti-Uusitalo K, Vaajasaari H, Skottman H, Hyttinen J
Electric impedance of human embryonic stem cell-derived retinal pigment epithelium.
Med Biol Eng Comput 2012 ;50(2)107-16
PMID

Hongisto H, Vuoristo S, Mikhailova A, Suuronen R, Virtanen I, Otonkoski T, Skottman H
Laminin-511 expression is associated with the functionality of feeder cells in human embryonic stem cell culture.
Stem Cell Res 2012 ;8(1)97-108
PMID

 
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