Musa A, Tripathi S, Dehmer M, Emmert-Streib F. L1000 viewer: A search engine and Web interface for the LINCS data repository. Frontiers in Genetics. 2019;10(JUN). 557. https://doi.org/10.3389/fgene.2019.00557

Moore D, Simoes RDM, Dehmer M, Emmert-Streib F. Prostate cancer gene regulatory network inferred from RNA-seq data. CURRENT GENOMICS. 2019;20(1):38-48. https://doi.org/10.2174/1389202919666181107122005

Gumulya Y, Boxall NJ, Khaleque HN, Santala V, Carlson RP, Kaksonen AH. In a quest for engineering acidophiles for biomining applications: Challenges and opportunities. Genes. 2018 Feb 21;9(2). 116. https://doi.org/10.3390/genes9020116

Emmert-Streib F, Dehmer M, Yli-Harja O. Lessons from the human genome project: Modesty, honesty, and realism. Frontiers in Genetics. 2017 Nov 23;8(NOV). 184. https://doi.org/10.3389/fgene.2017.00184

Emmert-Streib F, Dehmer M, Yli-Harja O. Against dataism and for data sharing of big biomedical and clinical data with research parasites. Frontiers in Genetics. 2016 Aug 31;7(AUG). 154. https://doi.org/10.3389/fgene.2016.00154

Emmert-Streib F, Tuomisto L, Yli-Harja O. The need for formally defining "modern medicine" by means of experimental design. Frontiers in Genetics. 2016 Apr 20;7(APR). 60. https://doi.org/10.3389/fgene.2016.00060

Al Olama AA, Dadaev T, Hazelett DJ, Li Q, Leongamornlert D, Saunders EJ et al. Multiple novel prostate cancer susceptibility signals identified by fine-mapping of known risk loci among Europeans. HUMAN MOLECULAR GENETICS. 2015 Oct 1;24(19):5589-5602. ddv203. https://doi.org/10.1093/hmg/ddv203

Turpeinen H, Seppälä I, Lyytikäinen LP, Raitoharju E, Hutri-Kähönen N, Levula M et al. A genome-wide expression quantitative trait loci analysis of proprotein convertase subtilisin/kexin enzymes identifies a novel regulatory gene variant for FURIN expression and blood pressure. HUMAN GENETICS. 2015 Jun 1;134(6):627-636. https://doi.org/10.1007/s00439-015-1546-5

Teerlink CC, Thibodeau SN, McDonnell SK, Schaid DJ, Rinckleb A, Maier C et al. Association analysis of 9,560 prostate cancer cases from the International Consortium of Prostate Cancer Genetics confirms the role of reported prostate cancer associated SNPs for familial disease. HUMAN GENETICS. 2014 Mar;133(3):347-356. https://doi.org/10.1007/s00439-013-1384-2

Traylor M, Mäkelä KM, Kilarski LL, Holliday EG, Devan WJ, Nalls MA et al. A Novel MMP12 Locus Is Associated with Large Artery Atherosclerotic Stroke Using a Genome-Wide Age-at-Onset Informed Approach. PLOS GENETICS. 2014;10(7). e1004469. https://doi.org/10.1371/journal.pgen.1004469

Emmert-Streib F. Enhancing our understanding of ways to analyze metagenomes. Frontiers in Genetics. 2014;5(APR). Article 108. https://doi.org/10.3389/fgene.2014.00108

Olsen C, Bontempi G, Emmert-Streib F, Quackenbush J, Haibe-Kains B. Relevance of different prior knowledge sources for inferring gene interaction networks. Frontiers in Genetics. 2014;5(JUN). Article 177. https://doi.org/10.3389/fgene.2014.00177

Emmert-Streib F, Simoes RDM, Mullan P, Haibe-Kains B, Dehmer M. The gene regulatory network for breast cancer: Integrated regulatory landscape of cancer hallmarks. Frontiers in Genetics. 2014;5(FEB). Article 15. https://doi.org/10.3389/fgene.2014.00015

Emmert-Streib F, Dehmer M, Haibe-Kains B. Untangling statistical and biological models to understand network inference: The need for a genomics network ontology. Frontiers in Genetics. 2014;5(AUG). article 229. https://doi.org/10.3389/fgene.2014.00299

Oksala N, Pärssinen J, Seppälä I, Raitoharju E, Ivana K, Hernesniemi J et al. Association of neuroimmune guidance cue netrin-1 and its chemorepulsive receptor UNC5B with atherosclerotic plaque expression signatures and stability in human(s) Tampere Vascular Study (TVS). Circulation: Cardiovascular Genetics. 2013 Dec;6(6):579-587. https://doi.org/10.1161/CIRCGENETICS.113.000141

Kleber ME, Seppälä I, Pilz S, Hoffmann MM, Tomaschitz A, Oksala N et al. Genome-wide association study identifies 3 genomic loci significantly associated with serum levels of homoarginine: The atheroremo consortium. Circulation: Cardiovascular Genetics. 2013 Oct;6(5):505-513. https://doi.org/10.1161/CIRCGENETICS.113.000108

Nickerson ML, Im KM, Misner KJ, Tan W, Lou H, Gold B et al. Somatic alterations contributing to metastasis of a castration-resistant prostate cancer. HUMAN MUTATION. 2013 Sep;34(9):1231-1241. https://doi.org/10.1002/humu.22346

Simpson CL, Cropp CD, Wahlfors T, George A, Jones MS, Harper U et al. Genetic heterogeneity in Finnish hereditary prostate cancer using ordered subset analysis. EUROPEAN JOURNAL OF HUMAN GENETICS. 2013 Apr;21(4):437-443. https://doi.org/10.1038/ejhg.2012.185

Al Olama AA, Kote-Jarai Z, Schumacher FR, Wiklund F, Berndt SI, Benlloch S et al. A meta-analysis of genome-wide association studies to identify prostate cancer susceptibility loci associated with aggressive and non-aggressive disease. HUMAN MOLECULAR GENETICS. 2013 Jan;22(2):408-415. dds425. https://doi.org/10.1093/hmg/dds425

Xu J, Lange EM, Lu L, Zheng SL, Wang Z, Thibodeau SN et al. HOXB13 is a susceptibility gene for prostate cancer: Results from the International Consortium for Prostate Cancer Genetics (ICPCG). HUMAN GENETICS. 2013 Jan;132(1):5-14. https://doi.org/10.1007/s00439-012-1229-4

Simoes RDM, Dehmer M, Emmert-Streib F. B-cell lymphoma gene regulatory networks: Biological consistency among inference methods. Frontiers in Genetics. 2013;4(DEC). 00281. https://doi.org/10.3389/fgene.2013.00281

Emmert-Streib F. Personalized medicine: Has it started yet? A reconstruction of the early history. Frontiers in Genetics. 2013;3(JAN). Article 313. https://doi.org/10.3389/fgene.2012.00313

Aavikko M, Li SP, Saarinen S, Alhopuro P, Kaasinen E, Morgunova E et al. Loss of SUFU function in familial multiple meningioma. AMERICAN JOURNAL OF HUMAN GENETICS. 2012 Sep 7;91(3):520-526. https://doi.org/10.1016/j.ajhg.2012.07.015

Inouye M, Ripatti S, Kettunen J, Lyytikäinen LP, Oksala N, Laurila PP et al. Novel Loci for Metabolic Networks and Multi-Tissue Expression Studies Reveal Genes for Atherosclerosis. PLOS GENETICS. 2012 Aug;8(8). e1002907. https://doi.org/10.1371/journal.pgen.1002907

Jin G, Lu L, Cooney KA, Ray AM, Zuhlke KA, Lange EM et al. Validation of prostate cancer risk-related loci identified from genome-wide association studies using family-based association analysis: Evidence from the International Consortium for Prostate Cancer Genetics (ICPCG). HUMAN GENETICS. 2012 Jul;131(7):1095-1103. https://doi.org/10.1007/s00439-011-1136-0

Bailey-Wilson JE, Childs EJ, Cropp CD, Schaid DJ, Xu J, Camp NJ et al. Analysis of Xq27-28 linkage in the international consortium for prostate cancer genetics (ICPCG) families. BMC MEDICAL GENETICS. 2012 Jun 19;13. 46. https://doi.org/10.1186/1471-2350-13-46

Heikura T, Nieminen T, Roschier MM, Karvinen H, Kaikkonen MU, Mähönen AJ et al. Baculovirus-mediated vascular endothelial growth factor-DΔNΔC gene transfer induces angiogenesis in rabbit skeletal muscle. JOURNAL OF GENE MEDICINE. 2012 Jan;14(1):35-43. https://doi.org/10.1002/jgm.1637

Emmert-Streib F, Glazko GV, Altay G, Simoes RDM. Statistical inference and reverse engineering of gene regulatory networks from observational expression data. Frontiers in Genetics. 2012;3(FEB). Article 8. https://doi.org/10.3389/fgene.2012.00008

Sharma V, Dixit D, Koul N, Mehta VS, Sen E. Ras regulates interleukin-1β-induced HIF-1α transcriptional activity in glioblastoma. JOURNAL OF MOLECULAR MEDICINE: JMM. 2011 Feb;89(2):123-136. https://doi.org/10.1007/s00109-010-0683-5

Shaughnessy DT, Ohe T, Landi S, Warren SH, Richard AM, Munter T et al. Mutation spectra of the drinking water mutagen 3-chloro-4-methyl-5- hydroxy-2(5H)-furanone (MCF) in Salmonella TA100 and TA104: Comparison to MX. Environmental and Molecular Mutagenesis. 2000;35(2):106-113. https://doi.org/10.1002/(SICI)1098-2280(2000)35:2<106::AID-EM5>3.0.CO;2-U

Fekadu K, Parzefall W, Kronberg L, Franzen R, Schulte-Hermann R, Knasmüller S. Induction of genotoxic effects by chlorohydroxyfuranones, byproducts of water disinfection, in E. coli K-12 cells recovered from various organs of mice. Environmental and Molecular Mutagenesis. 1994;24(4):317-324. https://doi.org/10.1002/em.2850240409