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Matti Kankainen

20042019
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Publications 2004 2019

Donor Simvastatin Treatment in Heart Transplantation A Randomized and Blinded Clinical Trial

Nykanen, A., Holmstrom, E. J., Tuuminen, R., Krebs, R., Dhaygude, K., Kankainen, M., Jokinen, J. J., Lommi, J., Helantera, I., Raisanen-Sokolowski, A., Syrjala, S. O. & Lemstrom, K. B., 20 Aug 2019, In : Circulation . 140, 8, p. 627-640 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Effect of Donor Simvastatin Treatment on Gene Expression Profiles in Human Cardiac Allografts during Ischemia-Reperfusion Injury

Krebs, R., Kankainen, M., Holmström, E., Dhaygude, K., Lukac, J., Ojala, T., Mattila, P., Nykänen, A. & Lemström, K., Apr 2019, In : Journal of Heart and Lung Transplantation. 38, 4, Supplement, p. S75-S76

Research output: Contribution to journalConference articleScientificpeer-review

Network pharmacology modeling identifies synergistic Aurora B and ZAK interaction in triple-negative breast cancer

Tang, J., Gautam, P., Gupta, A., He, L., Timonen, S., Akimov, Y., Wang, W., Szwajda, A., Jaiswal, A., Turei, D., Yadav, B., Kankainen, M., Saarela, J., Saez-Rodriguez, J., Wennerberg, K. & Aittokallio, T., 2019, In : npj Systems Biology and Applications. 5, 1

Research output: Contribution to journalArticleScientificpeer-review

Transcriptome Profiles of the Circulating Extracellular Vesicles in Acute Lung Allograft Rejection

Joo, S., Puhka, M., Krebs, R., Mattila, P., Kankainen, M., Dhaygude, K., Rouvinen, E. & Lemström, K., Apr 2019, p. S146.

Research output: Conference materialsAbstractResearchpeer-review

2018

Aggressive natural killer-cell leukemia mutational landscape and drug profiling highlight JAK-STAT signaling as therapeutic target

Dufva, O., Kankainen, M., Kelkka, T., Sekiguchi, N., Awad, S. A., Eldfors, S., Yadav, B., Kuusanmäki, H., Malani, D., Andersson, E. I., Pietarinen, P., Saikko, L., Kovanen, P. E., Ojala, T., Lee, D. A., Loughran, T. P., Nakazawa, H., Suzumiya, J., Suzuki, R., Ko, Y. H. & 7 othersKim, W. S., Chuang, S-S., Aittokallio, T., Chan, W. C., Ohshima, K., Ishida, F. & Mustjoki, S., 19 Apr 2018, In : Nature Communications. 9, 12 p., 1567.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Association of tamoxifen resistance and lipid reprogramming in breast cancer

Hultsch, S., Kankainen, M., Paavolainen, L., Kovanen, R-M., Ikonen, E., Kangaspeska, S., Pietiäinen, V. & Kallioniemi, O., 24 Aug 2018, In : BMC Cancer. 18, 14 p., 850.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Genome-Scale CRISPR Screens Identify Essential Genes for Sensitivity to Natural Killer Cells in Hematological Malignancies

Dufva, O., Klievink, J., Saeed, K., Kankainen, M., Ilander, M., Hannunen, T., Lagstrom, S., Ellonen, P., Lee, D. A. & Mustjoki, S., 29 Nov 2018, In : Blood. 132, 2 p.

Research output: Contribution to journalMeeting AbstractResearchpeer-review

Interleukin 8 activity influences the efficacy of adenoviral oncolytic immunotherapy in cancer patients

Taipale, K., Tähtinen, S., Havunen, R., Koski, A., Liikanen, I., Pakarinen, P., Koivisto-Korander, R., Kankainen, M., Joensuu, T., Kanerva, A. & Hemminki, A., 2018, In : Oncotarget. 9, 5, p. 6320-6335 16 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2017

Functional genomics provides insights into the role of Propionibacterium freudenreichii ssp shermanii JS in cheese ripening

Ojala, T., Laine, P. K. S., Ahlroos, T., Tanskanen, J., Pitkanen, S., Salusjarvi, T., Kankainen, M., Tynkkynen, S., Paulin, L. & Auvinen, P., 16 Jan 2017, In : International Journal of Food Microbiology. 241, p. 39-48 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Interleukin 8 activity influences the efficacy of adenoviral immunotherapy in cancer patients.

Taipale, A. V. K., Tähtinen, S., Siurala, M. O., Havunen, R. S. A., Koski-Palkén, A. K. E., Liikanen, I. J., Pakarinen, P., Koivisto-Korander, R., Kankainen, M. J., Joensuu, T. K., Kanerva, A-M. & Hemminki, A. E., 2017.

Research output: Conference materialsPosterResearch

The impact of RNA sequence library construction protocols on transcriptomic profiling of leukemia

Kumar, A., Kankainen, M., Parsons, A., Kallioniemi, O., Mattila, P. & Heckman, C. A., 17 Aug 2017, In : BMC Genomics. 18, 13 p., 629.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2016

Chronic Activation of Innate Immunity Correlates With Poor Prognosis in Cancer Patients Treated With Oncolytic Adenovirus

Taipale, K., Liikanen, I., Juhila, J., Turkki, R., Tahtinen, S., Kankainen, M., Vassilev, L., Ristimaki, A., Koski, A., Kanerva, A., Diaconu, I., Cerullo, V., Vaha-Koskela, M., Oksanen, M., Linder, N., Joensuu, T., Lundin, J. & Hemminki, A., Jan 2016, In : Molecular therapy. 24, 1, p. 175-183 9 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access

Fusarium mycotoxin enniatin B: Cytotoxic effects and changes in gene expression profile

Jonsson, M., Jestoi, M., Anthoni, M., Welling, A., Loivamaa, I., Hallikainen, V., Kankainen, M., Lysoe, E., Koivisto, P. & Peltonen, K., Aug 2016, In : Toxicology in Vitro. 34, p. 309-320 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Mutational Landscape of Aggressive Natural Killer Cell Leukemia and Drug Sensitivity Profiling Reveal Therapeutic Options in Natural Killer Cell Malignancies

Dufva, O., Kankainen, M., Kelkka, T., Awad, S. A., Sekiguchi, N., Yadav, B., Eldfors, S., Kuusanmaki, H., Andersson, E. I., Malani, D., Pietarinen, P., Saikko, L., Kovanen, P. E., Suzumiya, J., Suzuki, R., Ko, Y. H., Kim, W. S., Chuang, S-S., Loughran, T. P., Chan, W. C. & 4 othersOhshima, K., Aittokallio, T., Ishida, F. & Mustjoki, S., 2 Dec 2016, In : Blood. 128, 22, 4 p., 2921.

Research output: Contribution to journalMeeting AbstractResearch

Novel Mutations in Patients with Blast Crisis or Accelerated Phase Chronic Myeloid Leukemia

Awad, S. A., Kankainen, M., Eldfors, S., Kytola, S., Ellonen, P., Kamel, M., Heckman, C. A., Porkka, K. & Mustjoki, S., 2 Dec 2016, In : Blood. 128, 22, 3 p.

Research output: Contribution to journalMeeting AbstractResearchpeer-review

Phase I study with ONCOS-102 for the treatment of solid tumors - an evaluation of clinical response and exploratory analyses of immune markers

Ranki, T., Pesonen, S., Hemminki, A., Partanen, K., Kairemo, K., Alanko, T., Lundin, J., Linder, N., Turkki, R., Ristimäki, A., Jaeger, E., Karbach, J., Wahle, C., Kankainen, M., Backman, C., von Euler, M., Haavisto, E., Hakonen, T., Heiskanen, R., Jaderberg, M. & 6 othersJuhila, J., Priha, P., Suoranta, L., Vassilev, L., Vuolanto, A. & Joensuu, T., 15 Mar 2016, In : Journal for Immunotherapy of Cancer. 4, 18 p., 17.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Pseudoexons provide a mechanism for allele-specific expression of APC in familial adenomatous polyposis

Nieminen, T. T., Pavicic, W., Porkka, N., Kankainen, M., Jarvinen, H. J., Lepisto, A. & Peltomäki, P. T., 25 Oct 2016, In : Oncotarget. 7, 43, p. 70685-70698 14 p.

Research output: Contribution to journalArticleScientificpeer-review

2015
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Genome-Wide Analysis of Evolutionary Markers of Human Influenza A(H1N1)pdm09 and A(H3N2) Viruses May Guide Selection of Vaccine Strain Candidates

Belanov, S. S., Bychkov, D., Benner, C., Ripatti, S., Ojala, T., Kankainen, M., Lee, H. K., Tang, J. W-T. & Kainov, D. E., Dec 2015, In : Genome Biology and Evolution. 7, 12, p. 3472-3483 12 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Immunological data from cancer patients treated with Ad5/3-E2F-Delta 24-GMCSF suggests utility for tumor immunotherapy

Hemminki, O., Parviainen, S., Juhila, J., Turkki, R., Linder, N., Lundin, J., Kankainen, M., Ristimaki, A., Koski, A., Liikanen, I., Oksanen, M., Nettelbeck, D. M., Kairemo, K., Partanen, K., Joensuu, T., Kanerva, A. & Hemminki, A., 28 Feb 2015, In : Oncotarget. 6, 6, p. 4467-4481 15 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Loss of Rad51c accelerates tumourigenesis in sebaceous glands of Trp53-mutant mice

Tumiati, M., Hemmes, A., Uusivirta, S., Koopal, S., Kankainen, M., Lehtonen, E. & Kuznetsov, S. G., Jan 2015, In : Journal of Pathology. 235, 1, p. 136-146 11 p.

Research output: Contribution to journalArticleScientificpeer-review

Repeated intratumoral administration of ONCOS-102 leads to systemic antitumor CD8(+) T-cell response and robust cellular and transcriptional immune activation at tumor site in a patient with ovarian cancer

Vassilev, L., Ranki, T., Joensuu, T., Jaeger, E., Karbach, J., Wahle, C., Partanen, K., Kairemo, K., Alanko, T., Turkki, R., Linder, N., Lundin, J., Ristimaki, A., Kankainen, M., Hemminki, A., Backman, C., Dienel, K., von Euler, M., Haavisto, E., Hakonen, T. & 5 othersJuhila, J., Jaderberg, M., Priha, P., Vuolanto, A. & Pesonen, S., 2015, In : OncoImmunology. 4, 7, 5 p., 1017702.

Research output: Contribution to journalArticleScientificpeer-review

Comparative genomics of Lactobacillus crispatus suggests novel mechanisms for the competitive exclusion of Gardnerella vaginalis

Ojala, T., Kankainen, M., Castro, J., Cerca, N., Edelman, S., Westerlund-Wikstroem, B., Paulin, L., Holm, L. & Auvinen, P., 5 Dec 2014, In : BMC Genomics. 15, 21 p., 1070.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Genomics and Proteomics Provide New Insight into the Commensal and Pathogenic Lifestyles of Bovine- and Human-Associated Staphylococcus epidermidis Strains

Savijoki, K., Iivanainen, A., Siljamaki, P., Laine, P. K., Paulin, L., Karonen (os. Miettinen), T., Pyörälä, S., Kankainen, M., Nyman, T. A., Salomaki, T., Koskinen, P., Holm, L., Simojoki, H., Taponen, S., Sukura, A., Kalkkinen, N., Auvinen, P. & Varmanen, P., Aug 2014, In : Journal of Proteome Research. 13, 8, p. 3748-3762 15 p.

Research output: Contribution to journalArticleScientificpeer-review

Local treatment of a pleural mesothelioma tumor with ONCOS-102 induces a systemic antitumor CD8(+) T-cell response, prominent infiltration of CD8(+) lymphocytes and Th1 type polarization

Ranki, T., Joensuu, T., Jaeger, E., Karbach, J., Wahle, C., Kairemo, K., Alanko, T., Partanen, K., Turkki, R., Linder, N., Lundin, J., Ristimaki, A., Kankainen, M., Hemminki, A., Backman, C., Dienel, K., von Euler, M., Haavisto, E., Hakonen, T., Juhila, J. & 5 othersJaderberg, M., Priha, P., Vassilev, L., Vuolanto, A. & Pesonen, S., 2014, In : OncoImmunology. 3, 10, 4 p., 958937.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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2013

Effects of ellagitannin-rich berries on blood lipids, gut microbiota, and urolithin production in human subjects with symptoms of metabolic syndrome

Puupponen-Pimia, R., Seppanen-Laakso, T., Kankainen, M., Maukonen, J., Torronen, R., Kolehmainen, M., Leppanen, T., Moilanen, E., Nohynek, L., Aura, A-M., Poutanen, K., Tomas-Barberan, F. A., Espin, J. C. & Oksman-Caldentey, K-M., Dec 2013, In : Molecular Nutrition & Food Research. 57, 12, p. 2258-2263 6 p.

Research output: Contribution to journalArticleScientificpeer-review

2012

BLANNOTATOR: enhanced homology-based function prediction of bacterial proteins

Kankainen, M., Ojala, T. & Holm, L., 2012, In : BMC Bioinformatics. 13, 33, p. Article Number: 33 16 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Comparative exoproteomics of Staphylococcus epidermidis of human and bovine origin to identify bacterial factors involved in adaptation into bovine host

Savijoki, K., Siljamäki, P., Lietzen, N., Varmanen, P. K., Kankainen, M. & Nyman, T., 2012, Farm animal proteomics: Proceedings of the 3rd Managing Commitee Meeting and 2nd Meeting of Working Groups 1, 2 & 3 of COST Action FA1002. Rodrigues, P., Eckersall, D. & de Almeida, A. (eds.). Wageningen: Wageningen Academic Publishers, p. 111-115 5 p.

Research output: Chapter in Book/Report/Conference proceedingConference contributionScientific

Effect of acid stress on protein expression and phosphorylation in Lactobacillus rhamnosus GG

Koponen, J., Laakso, K., Koskenniemi, K., Kankainen, M., Savijoki, K., Nyman, T. A., de Vos, W. M., Tynkkynen, S., Kalkkinen, N. & Varmanen, P., 2012, In : Journal of Proteomics. 75, 4, p. 1357-1374 18 p.

Research output: Contribution to journalArticleScientificpeer-review

Nonpathogenic Lactobacillus rhamnosus activates the inflammasome and antiviral responses in human macrophages

Miettinen, M., Pietilä, T., Kekkonen, R. A., Kankainen, M., Latvala, S., Pirhonen, J., Österlund, P., Korpela, R. A. & Julkunen, I., Nov 2012, In : Gut Microbes. 3, 6, p. 510-522 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Systems-Level Analysis of Clinically Different Phenotypes of Juvenile Nasopharyngeal Angiofibromas

Renkonen, S., Kankainen, M., Hagström, J., Haglund, C., Monni, O. & Mäkitie, A. A., 2012, In : Laryngoscope. 122, 12, p. 2728–2735 8 p.

Research output: Contribution to journalArticleScientificpeer-review

2011

Adhesive polypeptides of Staphylococcus aureus identified using a novel secretion library technique in Escherichia coli

Kylväjä, R., Kankainen, M., Holm, L. & Westerlund-Wikström, B., May 2011, In : BMC Microbiology. 11, 117, p. 1-13 13 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Comparative Proteome Cataloging of Lactobacillus rhamnosus Strains GG and Lc705

Savijoki, K., Lietzen, N., Kankainen, M., Alatossava, T., Koskenniemi, K., Varmanen, P. & Nyman, T. A., 2011, In : Journal of Proteome Research. 10, 8, p. 3460-3473 14 p.

Research output: Contribution to journalArticleScientificpeer-review

Growth phase-associated changes in the proteome and transcriptome of Lactobacillus rhamnosus GG in industrial-type whey medium

Laakso, K., Koskenniemi, K., Koponen, J., Kankainen, M., Surakka, A., Salusjarvi, T., Auvinen, P., Savijoki, K., Nyman, T. A., Kalkkinen, N., Tynkkynen, S. & Varmanen, P., 2011, In : Microbial Biotechnology. 4, 6, p. 746-766 21 p.

Research output: Contribution to journalArticleScientificpeer-review

Identification of regulatory elements in the AGT1 promoter of ale and lager strains of brewer's yeast

Vidgren, V., Kankainen, M., Londesborough, J. & Ruohonen, L., 2011, In : Yeast : a forum for yeast researchers. 28, 8, p. 579-594 16 p.

Research output: Contribution to journalArticleScientificpeer-review

MPEA-metabolite pathway enrichment analysis

Kankainen, M., Gopalacharyulu, P., Holm, L. & Oresic, M., 2011, In : Bioinformatics Trends. 27, 13, p. 1878-1879 2 p.

Research output: Contribution to journalArticleScientificpeer-review

Probiotic Lactobacillus rhamnosus downregulates FCER1 and HRH4 expression in human mast cells

Oksaharju, A., Kankainen, M., Kekkonen, R. A., Lindstedt, K. A., Kovanen, P. T., Korpela, R. & Miettinen, M., 2011, In : World Journal of Gastroenterology. 17, 6, p. 750-759 10 p.

Research output: Contribution to journalArticleScientificpeer-review

Open Access
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Proteomics and transcriptomics characterization of bile stress response in probiotic Lactobacillus rhamnosus GG

Koskenniemi, K., Laakso, K., Koponen, J., Kankainen, M., Greco, D., Auvinen, P., Savijoki, K., Nyman, T., Surakka, A., Salusjärvi, T., de Vos, W. M., Tynkkynen, S., Kalkkinen, N. & Varmanen, P. K., 2011, In : Molecular & Cellular Proteomics. 10, 2, 18 p.

Research output: Contribution to journalArticleScientificpeer-review

2010

Genome Sequence of Lactobacillus crispatus ST1

Ojala, T., Kuparinen, V., Koskinen, P., Alatalo, R. M. E., Holm, L., Auvinen, P., Edelman, S., Westerlund-Wikström, B., Korhonen, T., Paulin, L. G. & Kankainen, M., 2010, In : Journal of Bacteriology. 192, 13, p. 3547-3548 2 p.

Research output: Contribution to journalArticleScientificpeer-review

Mucosal adhesion properties of the probiotic Lactobacillus rhamnosus GG SpaCBA and SpaFED pilin subunits

von Ossowski, I., Reunanen, J., Satokari, R., Vesterlund, S., Kankainen, M., Huhtinen, H., Tynkkynen, S., Salminen, S., de Vos, W. M. & Palva, A., 2010, In : Applied and Environmental Microbiology. 76, 7, p. 2049-2057 9 p.

Research output: Contribution to journalArticleScientificpeer-review

2009

Comparative genomic analysis of Lactobacillus rhamnosus GG reveals pili containing a human-mucus binding protein

Kankainen, M., Paulin, L., Tynkkynen, S., von Ossowski, I., Reunanen, J., Partanen, P., Satokari, R., Vesterlund, S., Hendrickx, A. P. A., Lebeer, S., Keersmaecker, S. C. J. D., Vanderleyden, J., Hämäläinen, T., Laukkanen, S., Salovuori, N., Ritari, J., Alatalo, E., Korpela, R., Mattila-Sandholm, T., Lassig, A. & 10 othersHatakka, K., Kinnunen, K. T., Karjalainen, H., Saxelin, M., Laakso, K., Surakka, A., Palva, A., Salusjärvi, T., Auvinen, P. & Vos de, W. M., 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 40, p. 17193-17198 6 p.

Research output: Contribution to journalArticleScientificpeer-review

LOCP - locating pilus operons in Gram-positive bacteria

Plyusnin, I., Holm, L. & Kankainen, M., 2009, In : Bioinformatics. 25, 9, p. 1187-1188 2 p.

Research output: Contribution to journalArticleScientificpeer-review

Proteome analysis of Lactobacillus rhamnosus GG using 2-D DIGE and mass spectrometry shows differential protein production in laboratory and industrial-type growth media

Koskenniemi, K., Koponen, J., Kankainen, M., Savijoki, K., Tynkkynen, S., Vos de, W. M., Kalkkinen, N. & Varmanen, P., 2009, In : Journal of Proteome Research. 8, 11, p. 4993-5007 15 p.

Research output: Contribution to journalArticleScientificpeer-review

2008

Regulation of xylose metabolism in recombinant Saccharomyces cerevisiae

Salusjarvi, L., Kankainen, M., Soliymani, R., Pitkanen, J. P., Penttila, M. & Ruohonen, L., 4 Jun 2008, In : Microbial Cell Factories. 7, 16 p., 18.

Research output: Contribution to journalArticleScientificpeer-review