Matti Nykter

Matti Nykter

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Matti Nykter

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Nrf2 and SQSTM1/p62 jointly contribute to mesenchymal transition and invasion in glioblastoma.

Oncogene 2019 Aug 23. Epub 2019 Aug 23.

Department of Biotechnology and Molecular Medicine, A.I. Virtanen Institute for Molecular Sciences, University of Eastern Finland, P.O. Box 1627, FIN-70211, Kuopio, Finland.

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http://dx.doi.org/10.1038/s41388-019-0956-6DOI Listing
August 2019

Supervised pathway analysis of blood gene expression profiles in Alzheimer's disease.

Neurobiol Aging 2019 Jul 16;84:98-108. Epub 2019 Jul 16.

Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland.

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http://dx.doi.org/10.1016/j.neurobiolaging.2019.07.004DOI Listing
July 2019

Bioinformatics Assembling and Assessment of Novel Coxsackievirus B1 Genome.

Methods Mol Biol 2018 ;1838:261-272

Computational Biology, Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1007/978-1-4939-8682-8_18DOI Listing
April 2019

Extensive reprogramming of the nascent transcriptome during iPSC to hepatocyte differentiation.

Sci Rep 2019 Mar 5;9(1):3562. Epub 2019 Mar 5.

Finnish Cardiovascular Research Center Tampere, Faculty of Medicine and Health Technology, Tampere University, Tampere, 33014, Finland.

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http://dx.doi.org/10.1038/s41598-019-39215-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6401154PMC
March 2019

Modes of immunosuppression in glioblastoma microenvironment.

Oncotarget 2019 Jan 29;10(9):920-921. Epub 2019 Jan 29.

Kirsi J. Granberg: Faculty of Medicine and Health Technologies, Tampere University, Tampere, Finland; Science Center, Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.18632/oncotarget.26643DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6398170PMC
January 2019

Computational Characterization of Suppressive Immune Microenvironments in Glioblastoma.

Cancer Res 2018 10 19;78(19):5574-5585. Epub 2018 Jun 19.

BioMediTech Institute and Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1158/0008-5472.CAN-17-3714DOI Listing
October 2018

Comparative analysis of tissue reconstruction algorithms for 3D histology.

Bioinformatics 2018 09;34(17):3013-3021

Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1093/bioinformatics/bty210DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6129300PMC
September 2018

NRF2, DJ1 and SNRX1 and their prognostic impact in astrocytic gliomas.

Histol Histopathol 2018 Aug 14;33(8):791-801. Epub 2018 Feb 14.

Institute of Clinical Medicine, Pathology and Forensic Medicine, University of Eastern Finland, Cancer Center of Eastern Finland and Department of Clinical Pathology, Kuopio University Hospital, Kuopio, Finland.

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http://dx.doi.org/10.14670/HH-11-973DOI Listing
August 2018

Frequent mutation of the untranslated region in prostate cancer.

Commun Biol 2018 24;1:122. Epub 2018 Aug 24.

2Vancouver Prostate Centre, Department of Urologic Sciences, University of British Columbia, Vancouver, BC V6H 3Z6 Canada.

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http://www.nature.com/articles/s42003-018-0128-1
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http://dx.doi.org/10.1038/s42003-018-0128-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6123809PMC
August 2018

Chromatin accessibility is associated with CRISPR-Cas9 efficiency in the zebrafish (Danio rerio).

PLoS One 2018 23;13(4):e0196238. Epub 2018 Apr 23.

Laboratory of Experimental Immunology, BioMediTech Institute and Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0196238PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5912780PMC
July 2018

Interleukin 10 mutant zebrafish have an enhanced interferon gamma response and improved survival against a Mycobacterium marinum infection.

Sci Rep 2018 07 9;8(1):10360. Epub 2018 Jul 9.

Laboratory of Experimental Immunology, BioMediTech Institute and Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1038/s41598-018-28511-wDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6037744PMC
July 2018

Comparison of iTRAQ and SWATH in a clinical study with multiple time points.

Clin Proteomics 2018 30;15:24. Epub 2018 Jul 30.

1Department of Ophthalmology, SILK, The Centre for Proteomics and Personalized Medicine (PPM), Faculty of Medicine and Life Sciences, University of Tampere, Arvo Ylpön katu 34, ARVO, PL 100, 33014 Tampere, Finland.

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http://dx.doi.org/10.1186/s12014-018-9201-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6065059PMC
July 2018

Proteomics of prostate cancer - revealing how cancer cells master their messy genomes.

Oncoscience 2018 Jul 31;5(7-8):216-217. Epub 2018 Jul 31.

Leena Latonen: Prostate Cancer Research Center, Faculty of Medicine and Life Sciences and BioMediTech Institute, University of Tampere, Tampere, Finland; FimLab laboratories, Tampere University Hospital, Tampere, Finland.

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http://impactjournals.com/oncoscience/index.php?pii=453
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http://dx.doi.org/10.18632/oncoscience.453DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6142899PMC
July 2018

Essential physiological differences characterise short- and long-lived strains of Drosophila melanogaster.

J Gerontol A Biol Sci Med Sci 2018 Jun 26. Epub 2018 Jun 26.

Institute for Cell and Molecular Biosciences, Newcastle University Institute for Ageing, Newcastle University, Newcastle upon Tyne, United Kingdom.

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http://dx.doi.org/10.1093/gerona/gly143DOI Listing
June 2018

Driver Fusions and Their Implications in the Development and Treatment of Human Cancers.

Cell Rep 2018 04;23(1):227-238.e3

Department of Medicine, Washington University in St. Louis, St. Louis, MO 63110, USA; McDonnell Genome Institute, Washington University in St. Louis, St. Louis, MO 63108, USA; Department of Genetics, Washington University in St. Louis, St. Louis, MO 63110, USA; Siteman Cancer Center, Washington University in St. Louis, St. Louis, MO 63110, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2018.03.050DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5916809PMC
April 2018

Topical fluorometholone treatment and desiccating stress change inflammatory protein expression in tears.

Ocul Surf 2018 01 14;16(1):84-92. Epub 2017 Sep 14.

SILK, Department of Ophthalmology, University of Tampere, Finland; Singapore Eye Research Institute, Singapore; Duke-NUS Neuroscience, Singapore; Duke-NUS Medical School Ophthalmology and Visual Sciences Academic Clinical Program, Singapore; Ophthalmology, Yong Loo Lin Medical School, National University of Singapore, Singapore.

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http://dx.doi.org/10.1016/j.jtos.2017.09.003DOI Listing
January 2018

Concordance of Circulating Tumor DNA and Matched Metastatic Tissue Biopsy in Prostate Cancer.

J Natl Cancer Inst 2017 Dec;109(12)

Department of Urologic Sciences, Vancouver Prostate Centre, University of British Columbia, Vancouver, Canada; Institute of Biosciences and Medical Technology, University of Tampere, Tampere, Finland; Department of Medicine and Department of Radiation Oncology, UCSF Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, CA; Oregon Health and Science University (OHSU) Knight Cancer Institute, Portland, OR; Department of Urology, University of California, Davis, School of Medicine, Sacremento, CA; Department of Medical Oncology, British Columbia Cancer Agency, Vancouver, Canada.

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http://dx.doi.org/10.1093/jnci/djx118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6440274PMC
December 2017

The expression of AURKA is androgen regulated in castration-resistant prostate cancer.

Sci Rep 2017 12 21;7(1):17978. Epub 2017 Dec 21.

BioMediTech Institute, Faculty of Medicine and Life Sciences, University of Tampere, Fimlab Laboratories, Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.1038/s41598-017-18210-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5740165PMC
December 2017

Laminin α5 substrates promote survival, network formation and functional development of human pluripotent stem cell-derived neurons in vitro.

Stem Cell Res 2017 10 12;24:118-127. Epub 2017 Sep 12.

NeuroGroup, BioMediTech, University of Tampere, Lääkärinkatu 1, 33520 Tampere, Finland.

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http://dx.doi.org/10.1016/j.scr.2017.09.002DOI Listing
October 2017

Strong FGFR3 staining is a marker for FGFR3 fusions in diffuse gliomas.

Neuro Oncol 2017 Sep;19(9):1206-1216

BioMediTech Institute and Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland; Department of Signal Processing, Tampere University of Technology, Tampere, Finland; Department of Pathology, The University of Texas MD Anderson Cancer Center, Houston, Texas; Science Center, Tampere University Hospital, Tampere, Finland; Fimlab Laboratories Ltd., Tampere University Hospital, Tampere, Finland; Unit of Neurosurgery, Tampere University Hospital, Tampere, Finland; Pori unit, Tampere University of Technology, Pori, Finland; Department of Pathology, University of Tampere, Tampere, Finland; Department of Cancer Biology, Comprehensive Cancer Center of Wake Forest Baptist Medical Center, Winston-Salem, North Carolina.

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http://dx.doi.org/10.1093/neuonc/nox028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5570261PMC
September 2017

Comparative analysis of osteoblast gene expression profiles and Runx2 genomic occupancy of mouse and human osteoblasts in vitro.

Gene 2017 Aug 11;626:119-131. Epub 2017 May 11.

Institute of Biomedicine, University of Turku, Turku, Finland; Department of Endocrinology, Division of Medicine, Turku University Hospital, Turku, Finland. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2017.05.028DOI Listing
August 2017

Treatment Outcomes and Tumor Loss of Heterozygosity in Germline DNA Repair-deficient Prostate Cancer.

Eur Urol 2017 07 1;72(1):34-42. Epub 2017 Mar 1.

Vancouver Prostate Centre, Department of Urologic Sciences, University of British Columbia, British Columbia, Canada. Electronic address:

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http://dx.doi.org/10.1016/j.eururo.2017.02.023DOI Listing
July 2017

Metastasis detection from whole slide images using local features and random forests.

Cytometry A 2017 06 20;91(6):555-565. Epub 2017 Apr 20.

BioMediTech and Faculty of Medicine and Life Sciences, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1002/cyto.a.23089DOI Listing
June 2017

Androgen Receptor Deregulation Drives Bromodomain-Mediated Chromatin Alterations in Prostate Cancer.

Cell Rep 2017 06;19(10):2045-2059

Centre for Molecular Medicine Norway, Nordic European Molecular Biology Laboratory Partnership, Forskningsparken, University of Oslo, 21 0349 Oslo, Norway; Department of Molecular Oncology, Institute for Cancer Research, Oslo University Hospital, 0424 Oslo, Norway; PCUK Movember Centre of Excellence, CCRCB, Queen's University, Belfast BT7 1NN, Northern Ireland, UK. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2017.05.049DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5675034PMC
June 2017

Vipie: web pipeline for parallel characterization of viral populations from multiple NGS samples.

BMC Genomics 2017 05 15;18(1):378. Epub 2017 May 15.

Department of Pediatrics, 2nd Faculty of Medicine, Charles University and University Hospital Motol, V Úvalu 84, 150 06, Praha 5, Czech Republic.

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http://dx.doi.org/10.1186/s12864-017-3721-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5430618PMC
May 2017

Segmentum: a tool for copy number analysis of cancer genomes.

BMC Bioinformatics 2017 Apr 13;18(1):215. Epub 2017 Apr 13.

Faculty of Medicine and Life Sciences and BioMediTech institute, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1186/s12859-017-1626-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5390478PMC
April 2017

Overexpression of PTP4A3 in ETV6-RUNX1 acute lymphoblastic leukemia.

Leuk Res 2017 03 26;54:1-6. Epub 2016 Dec 26.

Tampere Center for Child Health Research, University of Tampere and Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.1016/j.leukres.2016.12.005DOI Listing
March 2017

Analysis of spatial heterogeneity in normal epithelium and preneoplastic alterations in mouse prostate tumor models.

Sci Rep 2017 03 20;7:44831. Epub 2017 Mar 20.

Prostate Cancer Research Center, Faculty of Medicine and Life Sciences and BioMediTech, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1038/srep44831DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5357939PMC
March 2017

Genomic Alterations in Cell-Free DNA and Enzalutamide Resistance in Castration-Resistant Prostate Cancer.

JAMA Oncol 2016 Dec;2(12):1598-1606

Vancouver Prostate Centre, Department of Urologic Sciences, University of British Columbia, Vancouver, British Columbia, Canada2Department of Medical Oncology, British Columbia Cancer Agency, Vancouver, British Columbia, Canada.

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http://dx.doi.org/10.1001/jamaoncol.2016.0494DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5097690PMC
December 2016

Virtual cell imaging: A review on simulation methods employed in image cytometry.

Cytometry A 2016 12 6;89(12):1057-1072. Epub 2016 Dec 6.

Institute of Biosciences and Medical Technology - BioMediTech, University of Tampere, Tampere, Finland.

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http://doi.wiley.com/10.1002/cyto.a.23031
Publisher Site
http://dx.doi.org/10.1002/cyto.a.23031DOI Listing
December 2016

Expressional profiling of prostate cancer risk SNPs at 11q13.5 identifies DGAT2 as a new target gene.

Genes Chromosomes Cancer 2016 08 24;55(8):661-73. Epub 2016 May 24.

BioMediTech and Prostate Cancer Research Center, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1002/gcc.22368DOI Listing
August 2016

Integrated clinical, whole-genome, and transcriptome analysis of multisampled lethal metastatic prostate cancer.

Cold Spring Harb Mol Case Stud 2016 May;2(3):a000752

Prostate Cancer Research Center, Institute of Biosciences and Medical Technology, BioMediTech, University of Tampere and Fimlab Laboratories, Tampere University Hospital, FI-33014 Tampere, Finland;

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http://dx.doi.org/10.1101/mcs.a000752DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4853517PMC
May 2016

Bone morphogenetic protein 4 regulates microRNA expression in breast cancer cell lines in diverse fashion.

Genes Chromosomes Cancer 2016 Mar 18;55(3):227-36. Epub 2015 Dec 18.

Institute of Biosciences and Medical Technology (BioMediTech), University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1002/gcc.22324DOI Listing
March 2016

Feature-based analysis of mouse prostatic intraepithelial neoplasia in histological tissue sections.

J Pathol Inform 2016 29;7. Epub 2016 Jan 29.

Institute of Biosciences and Medical Technology - BioMediTech, University of Tampere, Tampere, Finland; Fimlab Laboratories, Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.4103/2153-3539.175378DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4763506PMC
March 2016

Twist predicts poor outcome of patients with astrocytic glioma.

J Clin Pathol 2015 Nov 10;68(11):905-12. Epub 2015 Jul 10.

Department of Pathology/Forensic Medicine, Institute of Clinical Medicine, University of Eastern Finland, Cancer Center of Eastern Finland, Kuopio, Finland.

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http://dx.doi.org/10.1136/jclinpath-2015-202868DOI Listing
November 2015

Transcriptome Sequencing Reveals PCAT5 as a Novel ERG-Regulated Long Noncoding RNA in Prostate Cancer.

Cancer Res 2015 Oct 17;75(19):4026-31. Epub 2015 Aug 17.

Department of Signal Processing, Tampere University of Technology, Tampere, Finland. Institute of Biosciences and Medical Technology-BioMediTech, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1158/0008-5472.CAN-15-0217DOI Listing
October 2015

Epigenetically altered miR-193b targets cyclin D1 in prostate cancer.

Cancer Med 2015 Sep 1;4(9):1417-25. Epub 2015 Jul 1.

Institute of Biosciences and Medical Technology - BioMediTech, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1002/cam4.486DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4567026PMC
September 2015

Construction of therapeutically relevant human prostate epithelial fate map by utilising miRNA and mRNA microarray expression data.

Br J Cancer 2015 Aug 23;113(4):611-5. Epub 2015 Jul 23.

1] Department of Biology, YCR Cancer Research Unit, University of York, York YO10 5DD, North Yorkshire, UK [2] Department of Urology, Castle Hill Hospital, Cottingham HU16 5JQ, East Yorkshire, UK.

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http://dx.doi.org/10.1038/bjc.2015.262DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4647689PMC
August 2015

MiR-1247-5p is overexpressed in castration resistant prostate cancer and targets MYCBP2.

Prostate 2015 Jun 1;75(8):798-805. Epub 2015 Mar 1.

Prostate Cancer Research Center, Institute of Biosciences and Medical Technology-BioMediTech and Fimlab Laboratories, University of Tampere and Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.1002/pros.22961DOI Listing
June 2015

Microarray analysis of differentially expressed genes in ovarian and fallopian tube epithelium from risk-reducing salpingo-oophorectomies.

Genes Chromosomes Cancer 2015 May 23;54(5):276-87. Epub 2015 Feb 23.

Department of Obstetrics and Gynecology, Tampere University Hospital, Tampere, Finland.

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http://dx.doi.org/10.1002/gcc.22241DOI Listing
May 2015

Ageing-associated changes in the human DNA methylome: genomic locations and effects on gene expression.

BMC Genomics 2015 Mar 14;16:179. Epub 2015 Mar 14.

Department of Microbiology and Immunology, School of Medicine, University of Tampere, Tampere, Finland.

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http://dx.doi.org/10.1186/s12864-015-1381-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4404609PMC
March 2015

MicroRNA expression profile of primary prostate cancer stem cells as a source of biomarkers and therapeutic targets.

Eur Urol 2015 Jan 16;67(1):7-10. Epub 2014 Sep 16.

YCR Cancer Research Unit, Department of Biology, University of York, York, North Yorkshire, UK; Hull York Medical School, University of Hull, Hull, East Yorkshire, UK. Electronic address:

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http://dx.doi.org/10.1016/j.eururo.2014.09.005DOI Listing
January 2015

Recurrent LRP1-SNRNP25 and KCNMB4-CCND3 fusion genes promote tumor cell motility in human osteosarcoma.

J Hematol Oncol 2014 Oct 10;7:76. Epub 2014 Oct 10.

Department of Pathology, University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA.

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http://dx.doi.org/10.1186/s13045-014-0076-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4197299PMC
October 2014

DOT1L-HES6 fusion drives androgen independent growth in prostate cancer.

EMBO Mol Med 2014 Sep;6(9):1121-3

Institute of Biosciences and Medical Technology, Tampere, Finland.

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http://dx.doi.org/10.15252/emmm.201404210DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4197859PMC
September 2014

Leukemia prediction using sparse logistic regression.

PLoS One 2013 30;8(8):e72932. Epub 2013 Aug 30.

Department of Signal Processing, Tampere University of Technology, Tampere, Finland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0072932PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3758279PMC
April 2014

A prostate cancer susceptibility allele at 6q22 increases RFX6 expression by modulating HOXB13 chromatin binding.

Nat Genet 2014 Feb 5;46(2):126-35. Epub 2014 Jan 5.

1] Biocenter Oulu, University of Oulu, Oulu, Finland. [2] Department of Medical Biochemistry and Molecular Biology, Institute of Biomedicine, University of Oulu, Oulu, Finland.

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http://dx.doi.org/10.1038/ng.2862DOI Listing
February 2014

Transcriptional analysis reveals gender-specific changes in the aging of the human immune system.

PLoS One 2013 11;8(6):e66229. Epub 2013 Jun 11.

Department of Microbiology and Immunology, School of Medicine, University of Tampere, Tampere, Finland ; Gerontology Research Center, Tampere, Finland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0066229PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3679079PMC
January 2014

Quantitative analysis of colony morphology in yeast.

Biotechniques 2014 Jan;56(1):18-27

Pacific Northwest Diabetes Research Institute, Seattle, WA; Molecular and Cellular Biology Program, University of Washington, Seattle, WA.

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http://dx.doi.org/10.2144/000114123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3996921PMC
January 2014

Loss of PTEN is associated with aggressive behavior in ERG-positive prostate cancer.

Cancer Epidemiol Biomarkers Prev 2013 Dec 1;22(12):2333-44. Epub 2013 Oct 1.

Authors' Affiliations: Institute of Biomedical Technology and Institute of Signal Processing, Prostate Cancer Research Center, BioMediTech, Department of Urology, School of Medicine, University of Tampere and Tampere University Hospital, Tampere, Finland; Departments of Pathology and Urology, Jikei University School of Medicine, Minato-ku, Tokyo; Department of Urology, Toho University Sakura Medical Center, Sakura, Chiba, Japan; Departments of Pathology and Urology, Johns Hopkins University, Baltimore, Maryland; and Department of Clinical Chemistry, Helsinki University Central Hospital, Helsinki, Finland.

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http://dx.doi.org/10.1158/1055-9965.EPI-13-0333-TDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086660PMC
December 2013

POMO--Plotting Omics analysis results for Multiple Organisms.

BMC Genomics 2013 Dec 24;14:918. Epub 2013 Dec 24.

Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Luxembourg, Luxembourg.

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http://dx.doi.org/10.1186/1471-2164-14-918DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3880012PMC
December 2013

Cancer genome sequencing: understanding malignancy as a disease of the genome, its conformation, and its evolution.

Cancer Lett 2013 Nov 27;340(2):152-60. Epub 2012 Oct 27.

The University of Texas Health Science Center, Houston, TX, USA; Department of Pathology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA.

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http://dx.doi.org/10.1016/j.canlet.2012.10.018DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632661PMC
November 2013

Next generation sequencing applications in cancer research.

Cancer Lett 2013 Nov 11;340(2):149-50. Epub 2013 Jun 11.

Department of Pathology, University of Texas, MD Anderson Cancer Center, Houston, Texas 77030, USA; Institute of Biomedical Technology, University of Tampere, Tampere 33014, Finland; Department of Epidemiology and Biostatistics, Tianjin Medical University, Cancer Institute and Hospital, Tianjin 300060, P.R. China. Electronic address:

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http://dx.doi.org/10.1016/j.canlet.2013.05.026DOI Listing
November 2013

Karyotypically abnormal human ESCs are sensitive to HDAC inhibitors and show altered regulation of genes linked to cancers and neurological diseases.

Stem Cell Res 2013 Nov 18;11(3):1022-36. Epub 2013 Jul 18.

Centre for Stem Cell Biology, Department of Biomedical Science, The University of Sheffield, Sheffield S10 2TN, UK; Turku Centre for Biotechnology, University of Turku and Åbo Akademi University, Turku FI-20520, Finland. Electronic address:

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http://dx.doi.org/10.1016/j.scr.2013.07.002DOI Listing
November 2013

Balance between noise and information flow maximizes set complexity of network dynamics.

PLoS One 2013 13;8(3):e56523. Epub 2013 Mar 13.

Department of Signal Processing, Tampere University of Technology, Tampere, Finland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0056523PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3596377PMC
September 2013

Gene-pair expression signatures reveal lineage control.

Nat Methods 2013 Jun 21;10(6):577-83. Epub 2013 Apr 21.

Life Sciences Research Unit, University of Luxembourg, Luxembourg, Luxembourg.

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http://dx.doi.org/10.1038/nmeth.2445DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4131748PMC
June 2013

Genomic and molecular characterization of malignant peripheral nerve sheath tumor identifies the IGF1R pathway as a primary target for treatment.

Clin Cancer Res 2011 12 31;17(24):7563-73. Epub 2011 Oct 31.

Departments of Bone and Soft Tissue Tumor, Pathology, and Epidemiology and Biostatistics, Tianjin Medical University Cancer Hospital and Institute, Tianjin, China.

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http://clincancerres.aacrjournals.org/cgi/doi/10.1158/1078-0
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http://dx.doi.org/10.1158/1078-0432.CCR-11-1707DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3243813PMC
December 2011

A systems biological approach to identify key transcription factors and their genomic neighborhoods in human sarcomas.

Chin J Cancer 2011 Jan;30(1):27-40

Department of Signal Processing, Tampere University of Technology, Tampere 33101, Finland.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4012261PMC
January 2011

An integrated study of aberrant gene copy number and gene expression in GIST and LMS.

Technol Cancer Res Treat 2010 Apr;9(2):171-8

Department of Pathology, Sarcoma Medical Oncology The University of Texas M. D. Anderson Cancer Center, Houston Texas, USA.

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April 2010

Biological Information as Set-Based Complexity.

IEEE Trans Inf Theory 2010 Feb 25;56(2):667-677. Epub 2010 Feb 25.

Institute for Systems Biology, Seattle, WA, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5110148PMC
February 2010