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Last Update:
September 27, 2017
PUBLICATIONS
Members of our group have contributed to these articles:
| (2019) "Comprehensive mismatch repair gene panel identifies variants in patients with Lynch-like syndrome" Xavier, A.; Olsen, M.F.; Lavik, L.A.; Johansen, J.; Singh, A.K.; Sjursen, W.; Scott, R.J.; Talseth-Palmer, B.A. Molecular genetics & genomic medicine 7(8):e850 view article |
| (2017) "MicroRNAs contribute to postnatal development of laminar differences and neuronal subtypes in the rat medial entorhinal cortex" Olsen, L.C.; O'Reilly, K.C.; Liabakk, N.B.; Witter, M.P.; Saetrom, P. Brain structure & function (): view article |
| (2017) "Genome-wide profiling of DNA 5-hydroxymethylcytosine during rat Sertoli cell maturation" Landfors, M.; Johansen, J.; Aronsen, J.M.; Vagbo, C.B.; Dore, L.C.; He, C.; Sjaastad, I.; Saetrom, P.; Fedorcsak, P.; Dahl, J.A.; Aanes, H.; Fusser, M.; Klungland, A. Cell discovery 3():17013 view article |
| (2017) "Use of multigene-panel identifies pathogenic variants in several CRC-predisposing genes in patients previously tested for Lynch Syndrome" Hansen, M.F.; Johansen, J.; Sylvander, A.E.; Bjornevoll, I.; Talseth-Palmer, B.A.; Lavik, L.A.S.; Xavier, A.; Engebretsen, L.F.; Scott, R.J.; Drablos, F.; Sjursen, W. Clinical genetics (): view article |
| (2017) "NEIL3-Dependent Regulation of Cardiac Fibroblast Proliferation Prevents Myocardial Rupture" Olsen, M.B.; Hildrestrand, G.A.; Scheffler, K.; Vinge, L.E.; Alfsnes, K.; Palibrk, V.; Wang, J.; Neurauter, C.G.; Luna, L.; Johansen, J.; Ogaard, J.D.S.; Ohm, I.K.; Slupphaug, G.; Kusnierczyk, A.; Fiane, A.E.; Brorson, S.-H.; Zhang, L.; Gullestad, L.; Louch, W.E.; Iversen, P.O.; Ostlie, I.; Klungland, A.; Christensen, G.; Sjaastad, I.; Saetrom, P.; Yndestad, A.; Aukrust, P.; Bjoras, M.; Finsen, A.V. Cell reports 18(1):82-92 view article |
| (2016) "Pathway Analysis of Skin from Psoriasis Patients after Adalimumab Treatment Reveals New Early Events in the Anti-Inflammatory Mechanism of Anti-TNF-alpha" Langkilde, A.; Olsen, L.C.; Saetrom, P.; Drablos, F.; Besenbacher, S.; Raaby, L.; Johansen, C.; Iversen, L. PloS one 11(12):e0167437 view article |
| (2016) "Isolation and genome sequencing of four Arctic marine Psychrobacter strains exhibiting multicopper oxidase activity" Moghadam, M.S.; Albersmeier, A.; Winkler, A.; Cimmino, L.; Rise, K.; Hohmann-Marriott, M.F.; Kalinowski, J.; Ruckert, C.; Wentzel, A.; Lale, R. BMC genomics 17():117 view article |
| (2016) "Phosphatase of regenerating liver 3 (PRL-3) is overexpressed in human prostate cancer tissue and promotes growth and migration" Vandsemb, E.N.; Bertilsson, H.; Abdollahi, P.; Storkersen, O.; Vatsveen, T.K.; Rye, M.B.; Ro, T.B.; Borset, M.; Slordahl, T.S. Journal of translational medicine 14():71 view article |
| (2016) "A Balanced Tissue Composition Reveals New Metabolic and Gene Expression Markers in Prostate Cancer" Tessem, M.-B.; Bertilsson, H.; Angelsen, A.; Bathen, T.F.; Drablos, F.; Rye, M.B. PloS one 11(4):e0153727 view article |
| (2016) "Presence of TMPRSS2-ERG is associated with alterations of the metabolic profile in human prostate cancer" Hansen, A.F.; Sandsmark, E.; Rye, M.B.; Wright, A.J.; Bertilsson, H.; Richardsen, E.; Viset, T.; Bofin, A.M.; Angelsen, A.; Selnaes, K.M.; Bathen, T.F.; Tessem, M.-B. Oncotarget 7(27):42071-42085 view article |
| (2016) "A novel non-canonical Wnt signature for prostate cancer aggressiveness" Sandsmark, E.; Hansen, A.F.; Selnaes, K.M.; Bertilsson, H.; Bofin, A.M.; Wright, A.J.; Viset, T.; Richardsen, E.; Drablos, F.; Bathen, T.F.; Tessem, M.-B.; Rye, M.B. Oncotarget (): view article |
| (2016) "Gene regulation knowledge commons: community action takes care of DNA binding transcription factors" Tripathi, S.; Vercruysse, S.; Chawla, K.; Christie, K.R.; Blake, J.A.; Huntley, R.P.; Orchard, S.; Hermjakob, H.; Thommesen, L.; Laegreid, A.; Kuiper, M. Database : the journal of biological databases and curation 2016(): view article |
| (2015) "Identification of dorsal-ventral hippocampal differentiation in neonatal rats" O'Reilly, K.C.; Flatberg, A.; Islam, S.; Olsen, L.C.; Kruge, I.U.; Witter, M.P. Brain structure & function 220(5):2873-2893 view article |
| (2015) "Human Breast Milk miRNA, Maternal Probiotic Supplementation and Atopic Dermatitis in Offspring" Simpson, M.R.; Brede, G.; Johansen, J.; Johnsen, R.; Storro, O.; Saetrom, P.; Oien, T. PloS one 10(12):e0143496 view article |
| (2015) "EpiFactors: a comprehensive database of human epigenetic factors and complexes" Medvedeva, Y.A.; Lennartsson, A.; Ehsani, R.; Kulakovskiy, I.V.; Vorontsov, I.E.; Panahandeh, P.; Khimulya, G.; Kasukawa, T.; Drablos, F. Database : the journal of biological databases and curation 2015():bav067 view article |
| (2015) "A property-based analysis of human transcription factors" Bahrami, S.; Ehsani, R.; Drablos, F. BMC research notes 8():82 view article |
| (2015) "RNA motif discovery: a computational overview" Achar, A.; Saetrom, P. Biology direct 10():61 view article |
| (2015) "Cell cycle regulation of human DNA repair and chromatin remodeling genes" Mjelle, R.; Hegre, S.A.; Aas, P.A.; Slupphaug, G.; Drablos, F.; Saetrom, P.; Krokan, H.E. DNA repair 30():53-67 view article |
| (2015) "ClusTrack: feature extraction and similarity measures for clustering of genome-wide data sets" Rydbeck, H.; Sandve, G.K.; Ferkingstad, E.; Simovski, B.; Rye, M.; Hovig, E. PloS one 10(4):e0123261 view article |
| (2015) "c-Myb Binding Sites in Haematopoietic Chromatin Landscapes" Bengtsen, M.; Klepper, K.; Gundersen, S.; Cuervo, I.; Drablos, F.; Hovig, E.; Sandve, G.K.; Gabrielsen, O.S.; Eskeland, R. PloS one 10(7):e0133280 view article |
| (2015) "Selection in the host structures the microbiota associated with developing cod larvae (Gadus morhua)" Bakke, I.; Coward, E.; Andersen, T.; Vadstein, O. Environmental microbiology 17(10):3914-3924 view article |
| (2015) "The gastrin and cholecystokinin receptors mediated signaling network: a scaffold for data analysis and new hypotheses on regulatory mechanisms" Tripathi, S.; Flobak, A.; Chawla, K.; Baudot, A.; Bruland, T.; Thommesen, L.; Kuiper, M.; Laegreid, A. BMC systems biology 9():40 view article |
| (2015) "A novel POLE mutation associated with cancers of colon, pancreas, ovaries and small intestine" Hansen, M.F.; Johansen, J.; Bjornevoll, I.; Sylvander, A.E.; Steinsbekk, K.S.; Saetrom, P.; Sandvik, A.K.; Drablos, F.; Sjursen, W. Familial cancer (): view article |
| (2015) "Studies of the photosensitizer disulfonated meso-tetraphenyl chlorin in an orthotopic rat bladder tumor model" Baglo, Y.; Peng, Q.; Hagen, L.; Berg, K.; Hogset, A.; Drablos, F.; Gederaas, O.A. Photodiagnosis and photodynamic therapy (): view article |
| (2015) "Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells" Arner, E.; Daub, C.O.; Vitting-Seerup, K.; Andersson, R.; Lilje, B.; Drablos, F.; Lennartsson, A.; Ronnerblad, M.; Hrydziuszko, O.; Vitezic, M.; Freeman, T.C.; Alhendi, A.; Arner, P.; Axton, R.; Baillie, J.K.; Beckhouse, A.; Bodega, B.; Briggs, J.; Brombacher, F.; Davis, M.; Detmar, M.; Ehrlund, A.; Endoh, M.; Eslami, A.; Fagiolini, M.; Fairbairn, L.; Faulkner, G.J.; Ferrai, C.; Fisher, M.E.; Forrester, L.; Goldowitz, D.; Guler, R.; Ha, T.; Hara, M.; Herlyn, M.; Ikawa, T.; Kai, C.; Kawamoto, H.; Khachigian, L.; Klinken, P.S.; Kojima, S.; Koseki, H.; Klein, S.; Mejhert, N.; Miyaguchi, K.; Mizuno, Y.; Morimoto, M.; Morris, K.J.; Mummery, C.; Nakachi, Y.; Ogishima, S.; Okada-Hatakeyama, M.; Okazaki, Y.; Orlando, V.; Ovchinnikov, D.; Passier, R.; Patrikakis, M.; Pombo, A.; Qin, X.-Y.; Roy, S.; Sato, H.; Savvi, S.; Saxena, A.; Schwegmann, A.; Sugiyama, D.; Swoboda, R.; Tanaka, H.; Tomoiu, A.; Winteringham, L.N.; Wolvetang, E.; Yanagi-Mizuochi, C.; Yoneda, M.; Zabierowski, S.; Zhang, P.; Abugessaisa, I.; Bertin, N.; Diehl, A.D.; Fukuda, S.; Furuno, M.; Harshbarger, J.; Hasegawa, A.; Hori, F.; Ishikawa-Kato, S.; Ishizu, Y.; Itoh, M.; Kawashima, T.; Kojima, M.; Kondo, N.; Lizio, M.; Meehan, T.F.; Mungall, C.J.; Murata, M.; Nishiyori-Sueki, H.; Sahin, S.; Sato-Nagao, S.; Severin, J.; de Hoon, M.J.; Kawai, J.; Kasukawa, T.; Lassmann, T.; Suzuki, H.; Kawaji, H.; Summers, K.M.; Wells, C.; Hume, D.A.; Forrest, A.R.; Sandelin, A.; Carninci, P.; Hayashizaki, Y. Science (New York, N.Y.) (): view article |
| (2015) "AID expression in B-cell lymphomas causes accumulation of genomic uracil and a distinct AID mutational signature" Pettersen, H.S.; Galashevskaya, A.; Doseth, B.; Sousa, M.M.L.; Sarno, A.; Visnes, T.; Aas, P.A.; Liabakk, N.-B.; Slupphaug, G.; Saetrom, P.; Kavli, B.; Krokan, H.E. DNA repair 25():60-71 view article |
| (2014) "A promoter-level mammalian expression atlas" Forrest, A.R.R.; Kawaji, H.; Rehli, M.; Baillie, J.K.; de Hoon, M.J.L.; Haberle, V.; Lassman, T.; Kulakovskiy, I.V.; Lizio, M.; Itoh, M.; Andersson, R.; Mungall, C.J.; Meehan, T.F.; Schmeier, S.; Bertin, N.; Jorgensen, M.; Dimont, E.; Arner, E.; Schmidl, C.; Schaefer, U.; Medvedeva, Y.A.; Plessy, C.; Vitezic, M.; Severin, J.; Semple, C.A.; Ishizu, Y.; Young, R.S.; Francescatto, M.; Alam, I.; Albanese, D.; Altschuler, G.M.; Arakawa, T.; Archer, J.A.C.; Arner, P.; Babina, M.; Rennie, S.; Balwierz, P.J.; Beckhouse, A.G.; Pradhan-Bhatt, S.; Blake, J.A.; Blumenthal, A.; Bodega, B.; Bonetti, A.; Briggs, J.; Brombacher, F.; Burroughs, A.M.; Califano, A.; Cannistraci, C.V.; Carbajo, D.; Chen, Y.; Chierici, M.; Ciani, Y.; Clevers, H.C.; Dalla, E.; Davis, C.A.; Detmar, M.; Diehl, A.D.; Dohi, T.; Drablos, F.; Edge, A.S.B.; Edinger, M.; Ekwall, K.; Endoh, M.; Enomoto, H.; Fagiolini, M.; Fairbairn, L.; Fang, H.; Farach-Carson, M.C.; Faulkner, G.J.; Favorov, A.V.; Fisher, M.E.; Frith, M.C.; Fujita, R.; Fukuda, S.; Furlanello, C.; Furino, M.; Furusawa, J.-ichi; Geijtenbeek, T.B.; Gibson, A.P.; Gingeras, T.; Goldowitz, D.; Gough, J.; Guhl, S.; Guler, R.; Gustincich, S.; Ha, T.J.; Hamaguchi, M.; Hara, M.; Harbers, M.; Harshbarger, J.; Hasegawa, A.; Hasegawa, Y.; Hashimoto, T.; Herlyn, M.; Hitchens, K.J.; Ho Sui, S.J.; Hofmann, O.M.; Hoof, I.; Hori, F.; Huminiecki, L.; Iida, K.; Ikawa, T.; Jankovic, B.R.; Jia, H.; Joshi, A.; Jurman, G.; Kaczkowski, B.; Kai, C.; Kaida, K.; Kaiho, A.; Kajiyama, K.; Kanamori-Katayama, M.; Kasianov, A.S.; Kasukawa, T.; Katayama, S.; Kato, S.; Kawaguchi, S.; Kawamoto, H.; Kawamura, Y.I.; Kawashima, T.; Kempfle, J.S.; Kenna, T.J.; Kere, J.; Khachigian, L.M.; Kitamura, T.; Klinken, S.P.; Knox, A.J.; Kojima, M.; Kojima, S.; Kondo, N.; Koseki, H.; Koyasu, S.; Krampitz, S.; Kubosaki, A.; Kwon, A.T.; Laros, J.F.J.; Lee, W.; Lennartsson, A.; Li, K.; Lilje, B.; Lipovich, L.; Mackay-Sim, A.; Manabe, R.-ichiroh; Mar, J.C.; Marchand, B.; Mathelier, A.; Mejhert, N.; Meynert, A.; Mizuno, Y.; de Lima Morais, D.A.; Morikawa, H.; Morimoto, M.; Moro, K.; Motakis, E.; Motohashi, H.; Mummery, C.L.; Murata, M.; Nagao-Sato, S.; Nakachi, Y.; Nakahara, F.; Nakamura, T.; Nakamura, Y.; Nakazato, K.; van Nimwegen, E.; Ninomiya, N.; Nishiyori, H.; Noma, S.; Noma, S.; Noazaki, T.; Ogishima, S.; Ohkura, N.; Ohimiya, H.; Ohno, H.; Ohshima, M.; Okada-Hatakeyama, M.; Okazaki, Y.; Orlando, V.; Ovchinnikov, D.A.; Pain, A.; Passier, R.; Patrikakis, M.; Persson, H.; Piazza, S.; Prendergast, J.G.D.; Rackham, O.J.L.; Ramilowski, J.A.; Rashid, M.; Ravasi, T.; Rizzu, P.; Roncador, M.; Roy, S.; Rye, M.B.; Saijyo, E.; Sajantila, A.; Saka, A.; Sakaguchi, S.; Sakai, M.; Sato, H.; Savvi, S.; Saxena, A.; Schneider, C.; Schultes, E.A.; Schulze-Tanzil, G.G.; Schwegmann, A.; Sengstag, T.; Sheng, G.; Shimoji, H.; Shimoni, Y.; Shin, J.W.; Simon, C.; Sugiyama, D.; Sugiyama, T.; Suzuki, M.; Suzuki, N.; Swoboda, R.K.; 't Hoen, P.A.C.; Tagami, M.; Takahashi, N.; Takai, J.; Tanaka, H.; Tatsukawa, H.; Tatum, Z.; Thompson, M.; Toyodo, H.; Toyoda, T.; Valen, E.; van de Wetering, M.; van den Berg, L.M.; Verado, R.; Vijayan, D.; Vorontsov, I.E.; Wasserman, W.W.; Watanabe, S.; Wells, C.A.; Winteringham, L.N.; Wolvetang, E.; Wood, E.J.; Yamaguchi, Y.; Yamamoto, M.; Yoneda, M.; Yonekura, Y.; Yoshida, S.; Zabierowski, S.E.; Zhang, P.G.; Zhao, X.; Zucchelli, S.; Summers, K.M.; Suzuki, H.; Daub, C.O.; Kawai, J.; Heutink, P.; Hide, W.; Freeman, T.C.; Lenhard, B.; Bajic, V.B.; Taylor, M.S.; Makeev, V.J.; Sandelin, A.; Hume, D.A.; Carninci, P.; Hayashizaki, Y. Nature 507(7493):462-470 view article |
| (2014) "Exploiting human CD34+ stem cell-conditioned medium for tissue repair" Mintz, P.J.; Huang, K.-W.; Reebye, V.; Nteliopoulos, G.; Lai, H.-S.; Saetrom, P.; Kasahara, N.; Jensen, S.; Pai, M.; Gordon, M.Y.A.; Marley, S.B.; Behan, R.; Spalding, D.R.; Haoudi, A.; Emara, M.M.; Nicholls, J.; Rossi, J.J.; Habib, N.A. Molecular therapy : the journal of the American Society of Gene Therapy 22(1):149-159 view article |
| (2014) "Novel RNA oligonucleotide improves liver function and inhibits liver carcinogenesis in vivo" Reebye, V.; Saetrom, P.; Mintz, P.J.; Huang, K.-W.; Swiderski, P.; Peng, L.; Liu, C.; Liu, X.; Lindkaer-Jensen, S.; Zacharoulis, D.; Kostomitsopoulos, N.; Kasahara, N.; Nicholls, J.P.; Jiao, L.R.; Pai, M.; Spalding, D.R.; Mizandari, M.; Chikovani, T.; Emara, M.M.; Haoudi, A.; Tomalia, D.A.; Rossi, J.J.; Habib, N.A. Hepatology (Baltimore, Md.) 59(1):216-227 view article |
| (2014) "Whole-exome sequencing identifies rare and low-frequency coding variants associated with LDL cholesterol" Lange, L.A.; Hu, Y.; Zhang, H.; Xue, C.; Schmidt, E.M.; Tang, Z.-Z.; Bizon, C.; Lange, E.M.; Smith, J.D.; Turner, E.H.; Jun, G.; Kang, H.M.; Peloso, G.; Auer, P.; Li, K.-P.; Flannick, J.; Zhang, J.; Fuchsberger, C.; Gaulton, K.; Lindgren, C.; Locke, A.; Manning, A.; Sim, X.; Rivas, M.A.; Holmen, O.L.; Gottesman, O.; Lu, Y.; Ruderfer, D.; Stahl, E.A.; Duan, Q.; Li, Y.; Durda, P.; Jiao, S.; Isaacs, A.; Hofman, A.; Bis, J.C.; Correa, A.; Griswold, M.E.; Jakobsdottir, J.; Smith, A.V.; Schreiner, P.J.; Feitosa, M.F.; Zhang, Q.; Huffman, J.E.; Crosby, J.; Wassel, C.L.; Do, R.; Franceschini, N.; Martin, L.W.; Robinson, J.G.; Assimes, T.L.; Crosslin, D.R.; Rosenthal, E.A.; Tsai, M.; Rieder, M.J.; Farlow, D.N.; Folsom, A.R.; Lumley, T.; Fox, E.R.; Carlson, C.S.; Peters, U.; Jackson, R.D.; van Duijn, C.M.; Uitterlinden, A.G.; Levy, D.; Rotter, J.I.; Taylor, H.A.; Gudnason, V.J.; Siscovick, D.S.; Fornage, M.; Borecki, I.B.; Hayward, C.; Rudan, I.; Chen, Y.E.; Bottinger, E.P.; Loos, R.J.F.; Saetrom, P.; Hveem, K.; Boehnke, M.; Groop, L.; McCarthy, M.; Meitinger, T.; Ballantyne, C.M.; Gabriel, S.B.; O'Donnell, C.J.; Post, W.S.; North, K.E.; Reiner, A.P.; Boerwinkle, E.; Psaty, B.M.; Altshuler, D.; Kathiresan, S.; Lin, D.-Y.; Jarvik, G.P.; Cupples, L.A.; Kooperberg, C.; Wilson, J.G.; Nickerson, D.A.; Abecasis, G.R.; Rich, S.S.; Tracy, R.P.; Willer, C.J. American journal of human genetics 94(2):233-245 view article |
| (2014) "Error-free versus mutagenic processing of genomic uracil--relevance to cancer" Krokan, H.E.; Saetrom, P.; Aas, P.A.; Pettersen, H.S.; Kavli, B.; Slupphaug, G. DNA repair 19():38-47 view article |
| (2014) "Circular RNAs are depleted of polymorphisms at microRNA binding sites" Thomas, L.F.; Saetrom, P. Bioinformatics (Oxford, England) 30(16):2243-2246 view article |
| (2014) "Regulation of inflammatory phenotype in macrophages by a diabetes-induced long noncoding RNA" Reddy, M.A.; Chen, Z.; Park, J.T.; Wang, M.; Lanting, L.; Zhang, Q.; Bhatt, K.; Leung, A.; Wu, X.; Putta, S.; Saetrom, P.; Devaraj, S.; Natarajan, R. Diabetes 63(12):4249-4261 view article |
| (2014) "Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines" Rye, M.; Sandve, G.K.; Daub, C.O.; Kawaji, H.; Carninci, P.; Forrest, A.R.R.; Drablos, F. BMC genomics 15():120 view article |
| (2014) "The eGenVar data management system--cataloguing and sharing sensitive data and metadata for the life sciences" Razick, S.; Mocnik, R.; Thomas, L.F.; Ryeng, E.; Drablos, F.; Saetrom, P. Database : the journal of biological databases and curation 2014():bau027 view article |
| (2014) "Enhanced efficacy of bleomycin in bladder cancer cells by photochemical internalization" Baglo, Y.; Hagen, L.; Hogset, A.; Drablos, F.; Otterlei, M.; Gederaas, O.A. BioMed research international 2014():921296 view article |
| (2014) "Gene signatures ESC, MYC and ERG-fusion are early markers of a potentially dangerous subtype of prostate cancer" Rye, M.B.; Bertilsson, H.; Drablos, F.; Angelsen, A.; Bathen, T.F.; Tessem, M.-B. BMC medical genomics 7():50 view article |
| (2014) "Comparative Genomics to Delineate Pathogenic Potential in Non-O157 Shiga Toxin-Producing Escherichia coli (STEC) from Patients with and without Haemolytic Uremic Syndrome (HUS) in Norway" Haugum, K.; Johansen, J.; Gabrielsen, C.; Brandal, L.T.; Bergh, K.; Ussery, D.W.; Drablos, F.; Afset, J.E. PloS one 9(10):e111788 view article |
| (2014) "Safety in numbers: multiple occurrences of highly similar homologs among Azotobacter vinelandii carbohydrate metabolism proteins probably confer adaptive benefits" Maerk, M.; Johansen, J.; Ertesvag, H.; Drablos, F.; Valla, S. BMC genomics 15(1):192 view article |
| (2013) "TFcheckpoint: a curated compendium of specific DNA-binding RNA polymerase II transcription factors" Chawla, K.; Tripathi, S.; Thommesen, L.; Laegreid, A.; Kuiper, M. Bioinformatics (Oxford, England) 29(19):2519-2520 view article |
| (2013) "Novel long noncoding RNAs are regulated by angiotensin II in vascular smooth muscle cells" Leung, A.; Trac, C.; Jin, W.; Lanting, L.; Akbany, A.; Saetrom, P.; Schones, D.E.; Natarajan, R. Circulation research 113(3):266-278 view article |
| (2013) "MicroRNAs act complementarily to regulate disease-related mRNA modules in human diseases" Chavali, S.; Bruhn, S.; Tiemann, K.; Saetrom, P.; Barrenas, F.; Saito, T.; Kanduri, K.; Wang, H.; Benson, M. RNA (New York, N.Y.) 19(11):1552-1562 view article |
| (2013) "The Genomic HyperBrowser: an analysis web server for genome-scale data" Sandve, G.K.; Gundersen, S.; Johansen, M.; Glad, I.K.; Gunathasan, K.; Holden, L.; Holden, M.; Liestol, K.; Nygard, S.; Nygaard, V.; Paulsen, J.; Rydbeck, H.; Trengereid, K.; Clancy, T.; Drablos, F.; Ferkingstad, E.; Kalas, M.; Lien, T.; Rye, M.B.; Frigessi, A.; Hovig, E. Nucleic acids research 41(Web Server issue):W133-41 view article |
| (2013) "Vitamin D receptor ChIP-seq in primary CD4+ cells: relationship to serum 25-hydroxyvitamin D levels and autoimmune disease" Handel, A.E.; Sandve, G.K.; Disanto, G.; Berlanga-Taylor, A.J.; Gallone, G.; Hanwell, H.; Drablos, F.; Giovannoni, G.; Ebers, G.C.; Ramagopalan, S.V. BMC medicine 11():163 view article |
| (2013) "The microbial communities in two apparently physically separated deep subsurface oil reservoirs show extensive DNA sequence similarities" Lewin, A.; Johansen, J.; Wentzel, A.; Kotlar, H.K.; Drablos, F.; Valla, S. Environmental microbiology (): view article |
| (2013) "MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis" Klepper, K.; Drablos, F. BMC bioinformatics 14():9 view article |
| (2013) "Designing dual-targeting siRNA duplexes having two active strands that combine siRNA and microRNA-like targeting" Saetrom, P. Methods in molecular biology (Clifton, N.J.) 942():169-177 view article |
| (2013) "Multiple microRNAs may regulate the DNA repair enzyme uracil-DNA glycosylase" Hegre, S.A.; Saetrom, P.; Aas, P.A.; Pettersen, H.S.; Otterlei, M.; Krokan, H.E. DNA repair 12(1):80-86 view article |
| (2013) "Transcription profiling during the cell cycle shows that a subset of Polycomb-targeted genes is upregulated during DNA replication" Pena-Diaz, J.; Hegre, S.A.; Anderssen, E.; Aas, P.A.; Mjelle, R.; Gilfillan, G.D.; Lyle, R.; Drablos, F.; Krokan, H.E.; Saetrom, P. Nucleic acids research 41(5):2846-2856 view article |
| (2013) "Novel Long Non-Coding RNAs Are Regulated by Angiotensin II in Vascular Smooth Muscle Cells" Leung, A.; Trac, C.; Jin, W.; Lanting, L.; Akbany, A.; Saetrom, P.; Schones, D.E.; Natarajan, R. Circulation research (): view article |
| (2013) "A Short-activating RNA Oligonucleotide Targeting the Islet beta-cell Transcriptional Factor MafA in CD34(+) Cells" Reebye, V.; Saetrom, P.; Mintz, P.J.; Rossi, J.J.; Kasahara, N.; Nteliopoulos, G.; Nicholls, J.; Haoudi, A.; Gordon, M.; Habib, N.A. Molecular therapy. Nucleic acids 2():e97 view article |
| (2013) "Identification of serum microRNA profiles in colon cancer" Hofsli, E.; Sjursen, W.; Prestvik, W.S.; Johansen, J.; Rye, M.; Trano, G.; Wasmuth, H.H.; Hatlevoll, I.; Thommesen, L. British journal of cancer 108(8):1712-1719 view article |
| (2012) "The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding" Kornacker, K.; Rye, M.B.; Handstad, T.; Drablos, F. BMC bioinformatics 13():176 view article |
| (2012) "Single nucleotide polymorphisms can create alternative polyadenylation signals and affect gene expression through loss of microRNA-regulation" Thomas, L.F.; Saetrom, P. PLoS computational biology 8(8):e1002621 view article |
| (2012) "Target gene expression levels and competition between transfected and endogenous microRNAs are strong confounding factors in microRNA high-throughput experiments" Saito, T.; Saetrom, P. Silence 3():3 view article |
| (2012) "Cell-type specificity of ChIP-predicted transcription factor binding sites" Handstad, T.; Rye, M.; Mocnik, R.; Drablos, F.; Saetrom, P. BMC genomics 13():372 view article |
| (2012) "MicroRNA-181a* Targets Nanog in a Subpopulation of CD34(+) Cells Isolated From Peripheral Blood" Mintz, P.J.; Saetrom, P.; Reebye, V.; Lundbaek, M.B.; Lao, K.; Rossi, J.J.; Gaensler, K.M.; Kasahara, N.; Nicholls, J.P.; Jensen, S.; Haoudi, A.; Emara, M.M.; Gordon, M.Y.; Habib, N.A. Molecular therapy. Nucleic acids 1():e34 view article |
| (2012) "Gene Expression Profile Changes After Short-activating RNA-mediated Induction of Endogenous Pluripotency Factors in Human Mesenchymal Stem Cells" Voutila, J.; Saetrom, P.; Mintz, P.; Sun, G.; Alluin, J.; Rossi, J.J.; Habib, N.A.; Kasahara, N. Molecular therapy. Nucleic acids 1():e35 view article |
| (2011) "Clustered ChIP-Seq-defined transcription factor binding sites and histone modifications map distinct classes of regulatory elements" Rye, M.; Saetrom, P.; Handstad, T.; Drablos, F. BMC biology 9():80 view article |
| (2011) "High coverage sequencing of DNA from microorganisms living in an oil reservoir 2.5 kilometres subsurface" Kotlar,HK; Lewin,A; Johansen,J; Trone-Holst,M; Haverkamp,T; Markussen,S; Winnberg,A; Ringrose,P; Aakvik,T; Ryeng,E; Jakobsen,K; Drablos,F; Valla,S Environmental Microbiology Reports 3(6):674-681 view article |
| (2011) "Unconventional RNA interference - recent approaches to robust RNAi" Lundbaek, M.; Saetrom, P. European Pharmaceutical Review (5): view article |
| (2011) "Unconventional RNA interference - recent approaches to robust RNAi" Lundbaek, M.; Saetrom, P. European Pharmaceutical Review (5): view article |
| (2011) "Inferring causative variants in microRNA target sites" Thomas, L.F.; Saito, T.; Saetrom, P. Nucleic acids research 39(16):e109 view article |
| (2011) "Inferring causative variants in microRNA target sites" Thomas, L.F.; Saito, T.; Saetrom, P. Nucleic acids research 39(16):e109 view article |
| (2011) "The Use of Chemometrics to Analyse Protein Patterns from Gel Electrophoresis" Faergestad, E.M.; Rye, M.B.; Nhek, S.; Hollung, K.; Grove, H. Acta Chromatographica 23(1):1-40 view article |
| (2011) "A ChIP-Seq Benchmark Shows That Sequence Conservation Mainly Improves Detection of Strong Transcription Factor Binding Sites" Handstad, T.; Rye, M.B.; Drablos, F.; Saetrom, P. PloS one 6(4):e18430 view article tool |
| (2011) "A ChIP-Seq Benchmark Shows That Sequence Conservation Mainly Improves Detection of Strong Transcription Factor Binding Sites" Handstad, T.; Rye, M.B.; Drablos, F.; Saetrom, P. PloS one 6(4):e18430 view article tool |
| (2010) "A two-step site and mRNA-level model for predicting microRNA targets" Saito, T.; Saetrom, P. BMC bioinformatics 11():612 view article |
| (2010) "Rational design of micro-RNA-like bifunctional siRNAs targeting HIV and the HIV coreceptor CCR5" Ehsani, A.; Saetrom, P.; Zhang, J.; Alluin, J.; Li, H.; Snove, O.J.; Aagaard, L.; Rossi, J.J. Molecular therapy : the journal of the American Society of Gene Therapy 18(4):796-802 view article |
| (2010) "MicroRNAs--targeting and target prediction" Saito, T.; Saetrom, P. New biotechnology 27(3):243-249 view article |
| (2010) "Dual-targeting siRNAs" Tiemann, K.; Hohn, B.; Ehsani, A.; Forman, S.J.; Rossi, J.J.; Saetrom, P. RNA (New York, N.Y.) 16(6):1275-1284 view article |
| (2010) "Optimization of duplex stability and terminal asymmetry for shRNA design" Matveeva, O.V.; Kang, Y.; Spiridonov, A.N.; Saetrom, P.; Nemtsov, V.A.; Ogurtsov, A.Y.; Nechipurenko, Y.D.; Shabalina, S.A. PloS one 5(4):e10180 view article |
| (2010) "Differential gene expression downstream of Toll-like receptors (TLRs): role of c-Src and activating transcription factor 3 (ATF3)" Nguyen, T.T.; Johnsen, I.B.; Knetter, C.F.; Drablos, F.; Fitzgerald, K.A.; Lien, E.; Anthonsen, M.W. The Journal of biological chemistry 285(22):17011-17019 view article |
| (2010) "Structural and functional analysis of the hemagglutinin-esterase of infectious salmon anaemia virus" Muller, A.; Markussen, T.; Drablos, F.; Gjoen, T.; Jorgensen, T.O.; Solem, S.T.; Mjaaland, S. Virus research 151(2):131-141 view article |
| (2010) "Isolation of mutant alginate lyases with cleavage specificity for di-guluronic acid linkages" Tondervik, A.; Klinkenberg, G.; Aarstad, O.A.; Drablos, F.; Ertesvag, H.; Ellingsen, T.E.; Skjak-Braek, G.; Valla, S.; Sletta, H. The Journal of biological chemistry 285(46):35284-35292 view article |
| (2010) "PriorsEditor: a tool for the creation and use of positional priors in motif discovery" Klepper, K.; Drablos, F. Bioinformatics (Oxford, England) 26(17):2195-2197 view article tool |
| (2010) "Genetic and molecular functional characterization of variants within TNFSF13B, a positional candidate preeclampsia susceptibility gene on 13q" Fenstad, M.H.; Johnson, M.P.; Roten, L.T.; Aas, P.A.; Forsmo, S.; Klepper, K.; East, C.E.; Abraham, L.J.; Blangero, J.; Brennecke, S.P.; Austgulen, R.; Moses, E.K. PloS one 5(9): view article |
| (2010) "A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs" Rye M.B.; Saetrom P.; Drablos F. Nucleic acids research (): view article tool |
| (2010) "Gene duplications in prokaryotes can be associated with environmental adaptation" Bratlie MS, Johansen J, Sherman BT, Huang DW, Lempicki RA, Drablos F. BMC genomics 11(1):588 view article |
| (2010) "Rational Design of Micro-RNA-like Bifunctional siRNAs Targeting HIV and the HIV Coreceptor CCR5" Ehsani, A.; Saetrom, P.; Zhang, J.; Alluin, J.; Li, H.; Snove Jr, O.; Aagaard, L.; Rossi, J.J. Molecular therapy : the journal of the American Society of Gene Therapy 8(4):796-802 view article |
| (2010) "Relationship between operon preference and functional properties of persistent genes in bacterial genomes" Bratlie, M.; Johansen, J.;Drablos, F. BMC genomics 11(1):71 view article |
| (2009) "Identification of a novel, widespread, and functionally important PCNA-binding motif" Gilljam, K.M.; Feyzi, E.; Aas, P.A.; Sousa, M.M.L.; Muller, R.; Vagbo, C.B.; Catterall, T.C.; Liabakk, N.B.; Slupphaug, G.; Drablos, F.; Krokan, H.E.; Otterlei, M. The Journal of cell biology 186(5):645-654 view article tool |
| (2009) "miRNA and viral infections in vertebrates" Saetrom, P.; Klein, J. European Pharmaceutical Review (1):10-15 view article tool |
| (2009) "Animal MicroRNA gene prediction" Snove Jr, O.; Saetrom, P. Regulation of Gene Expression by Small RNAs ():21-44 view article |
| (2009) "A risk variant in an miR-125b binding site in BMPR1B is associated with breast cancer pathogenesis" Saetrom, P.; Biesinger, J.; Li, S.M.; Smith, D.; Thomas, L.F.; Majzoub, K.; Rivas, G.E.; Alluin, J.; Rossi, J.J.; Krontiris, T.G.; Weitzel, J.; Daly, M.B.; Benson, A.B.; Kirkwood, J.M.; O'Dwyer, P.J.; Sutphen, R.; Stewart, J.A.; Johnson, D.; Larson, G.P. Cancer research 69(18):7459-7465 view article |
| (2008) "miR-302b maintains "stemness" of human embryonal carcinoma cells by post-transcriptional regulation of Cyclin D2 expression" Lee, N.S.; Kim, J.S.; Cho, W.J.; Lee, M.R.; Steiner, R.; Gompers, A.; Ling, D.; Zhang, J.; Strom, P.; Behlke, M.; Moon, S.-H.; Salvaterra, P.M.; Jove, R.; Kim, K.-S. Biochemical and biophysical research communications 377(2):434-440 view article |
| (2008) "Engineering and optimization of the miR-106b cluster for ectopic expression of multiplexed anti-HIV RNAs" Aagaard, L.; Zhang, J.; von Eije, K.J.; Li, H; Saetrom, P.; Amarzguioui, M; Rossi, J.J. Gene therapy 15(23):1536-1549 view article |
| (2008) "A role for the Dicer helicase domain in the processing of thermodynamically unstable hairpin RNAs" Soifer, H.S.; Sano, M.; Sakurai, K.; Chomchan, P.; Saetrom, P.; Sherman, M.A.; Collingwood, M.A.; Behlke, M.A.; Rossi, J.J. Nucleic acids research 36(20):6511-6522 view article |
| (2008) "A new method for assigning common spot boundaries for multiple gels in two-dimensional gel electrophoresis" Rye, M.B.; Faergestad, E.M.; Alsberg, B.K. Electrophoresis 29(6):1359-1368 view article |
| (2008) "A multivariate spot filtering model for two-dimensional gel electrophoresis" Rye, M.B.; Alsberg, B.K. Electrophoresis 29(6):1369-1381 view article |
| (2008) "An improved pixel-based approach for analyzing images in two-dimensional gel electrophoresis" Rye, M.B.; Faergestad, E.M.; Martens, H.; Wold, J.P.; Alsberg, B.K. Electrophoresis 29(6):1382-1393 view article |
| (2008) "MicroRNA-directed transcriptional gene silencing in mammalian cells" Kim, D.H.; Saetrom, P.; Snove, O.J.; Rossi, J.J. Proceedings of the National Academy of Sciences of the United States of America 105(42):16230-16235 view article |
| (2008) "Meta-analysis of breast cancer microarray studies in conjunction with conserved cis-elements suggest patterns for coordinate regulation" Smith, D.D.; Saetrom, P.; Snove, O.J.; Lundberg, C.; Rivas, G.E.; Glackin, C.; Larson, G.P. BMC bioinformatics 9():63 view article |
| (2008) "Assessment of composite motif discovery methods" Klepper, K; Sandve, GK; Abul, O; Johansen, J; Drablos,F BMC Bioinformatics 9():123 view article tool |
| (2007) "Pixel-based analysis of multiple images for the identification of changes: a novel approach applied to unravel proteome patterns [corrected] of 2-D electrophoresis gel images" Faergestad, E.M.; Rye, M.; Walczak, B.; Gidskehaug, L.; Wold, J.P.; Grove, H.; Jia, X.; Hollung, K.; Indahl, U.G.; Westad, F.; van den Berg, F.; Martens, H. Proteomics 7(19):3450-3461 view article |
| (2007) "Motif kernel generated by genetic programming improves remote homology and fold detection" Handstad, T.; Hestnes, A.J.H.; Saetrom, P. BMC bioinformatics 8():23 view article |
| (2007) "Comparison of approaches for rational siRNA design leading to a new efficient and transparent method" Matveeva, O.; Nechipurenko, Y.; Rossi, L.; Moore, B.; Saetrom, P.; Ogurtsov, A.Y.; Atkins, J.F.; Shabalina, S.A. Nucleic acids research 35(8):e63 view article |
| (2007) "Improved benchmarks for computational motif discovery" Sandve, G.K.; Abul, O.; Walseng, V.; Drablos, F. BMC bioinformatics 8():193 view article tool |
| (2007) "The smr gene resides on a novel plasmid pSP187 identified in a Staphylococcus pasteuri isolate recovered from unpasteurized milk" Bjorland, J.; Bratlie, M.S.; Steinum, T. Plasmid 57(2):145-155 view article |
| (2007) "Robust Machine Learning Algorithms Predict MicroRNA Genes and Targets" Saetrom, P.; Snove, O.J. Methods Enzymol 427c():25-49 view article |
| (2007) "Reliable prediction of Drosha processing sites improves microRNA gene prediction" Helvik, S.A.; Snove, O.J.; Saetrom, P. Bioinformatics (Oxford, England) 23(2):142-149 view article tool |
| (2007) "Distance constraints between microRNA target sites dictate efficacy and cooperativity" Saetrom, P.; Heale, B.S.E.; Snove, O.J.; Aagaard, L.; Alluin, J.; Rossi, J.J. Nucleic acids research 35(7):2333-2342 view article |
| (2007) "Epigenetics and microRNAs" Saetrom, P.; Snove, O.J.; Rossi, J.J. Pediatric research 61(5 Pt 2):17r-23r view article |
| (2007) "MicroRNAs in Disease and Potential Therapeutic Applications" Soifer, HS.; Rossi, JJ.; Saetrom, P. Molecular Therapy 15(12):2070-2079 view article |
| (2006) "[Nobel Prize for RNA interference]" Snove, O.J.; Saetrom, P. Tidsskrift for den Norske laegeforening 126(24):3252 view article |
| (2006) "A survey of motif discovery methods in an integrated framework" Sandve, G.K.; Drablos, F. Biology direct 1():11 view article |
| (2006) "A methodology for motif discovery employing iterated cluster re-assignment" Abul, O.; Drablos, F.; Sandve, G.K. Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference ():257-268 view article |
| (2006) "Conserved microRNA characteristics in mammals" Saetrom, P.; Snove, O.; Nedland, M.; Grunfeld, T.B.; Lin, Y.; Bass, M.B.; Canon, J.R. Oligonucleotides 16(2):115-144 view article |
| (2006) "Gene expression profiling of whole-blood samples from women exposed to hormone replacement therapy" Dumeaux, V.;Johansen, J.; Borresen-Dale, A.-L.; Lund, E. Molecular cancer therapeutics 5(4):868-876 view article |
| (2005) "Evolutionary rule mining in time series databases" Hetland, M.L.; Saetrom, P. Machine Learning 58(2-3):107-125 view article |
| (2005) "Bioinformatic mapping of AlkB homology domains in viruses" Bratlie, M.S.; Drablos, F. BMC genomics 6(1):1 view article |
| (2005) "Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming" Saetrom, P.; Sneve, R.; Kristiansen, K.I.; Snove, O.J.; Grunfeld, T.; Rognes, T.; Seeberg, E. Nucleic acids research 33(10):3263-3270 view article |
| (2005) "Weighted sequence motifs as an improved seeding step in microRNA target prediction algorithms" Saetrom, O.; Snove, O.J.; Saetrom, P. RNA (New York, N.Y.) 11(7):995-1003 view article tool |
| (2004) "A recursive MISD architecture for pattern matching" Halaas, A.; Svingen, B.; Nedland, M.; Saetrom, P.; Snove, O.; Birkeland, O.R. Ieee Transactions On Very Large Scale Integration (Vlsi) Systems 12(7):727-734 view article |
| (2004) "Predicting the efficacy of short oligonucleotides in antisense and RNAi experiments with boosted genetic programming" Saetrom, P. Bioinformatics (Oxford, England) 20(17):3055-3063 view article |
| (2004) "A comparison of siRNA efficacy predictors" Saetrom, P.; Snove, O.J. Biochemical and biophysical research communications 321(1):247-253 view article |
| (2004) "Designing effective siRNAs with off-target control" Snove, O.J.; Nedland, M.; Fjeldstad, S.H.; Humberset, H.; Birkeland, O.R.; Grunfeld, T.; Saetrom, P. Biochemical and biophysical research communications 325(3):769-773 view article tool |
| (2004) "Alkylation damage in DNA and RNA-repair mechanisms and medical significance" Drablos, F.; Feyzi, E.; Aas, P.A.; Vaagbo, C.B.; Kavli, B.; Bratlie, M.S.; Pena-Diaz, J.; Otterlei, M.; Slupphaug, G.; Krokan, H.E. DNA repair 3(11):1389-1407 view article |
Bioinformatics & Gene RegulationDepartment of Cancer Research and Molecular Medicine
Norwegian University of Science and Technology
Trondheim, Norway