Rolf I. Skotheim

• Celestino, Ricardo; Nome, Torfinn; Pestana, Ana; Hoff, Andreas Midbøe; Gonçalves, A. Pedro; Pereira, Luísa; Cavadas, Bruno; Eloy, Catarina; Bjøro, Trine; Sobrinho-Simões, Manuel; Skotheim, Rolf I. & Soares, Paula (2018). CRABP1, C1QL1 and LCN2 are biomarkers of differentiated thyroid carcinoma, and predict extrathyroidal extension. BMC Cancer.  ISSN 1471-2407.  18:68, s 1- 16 . doi: 10.1186/s12885-017-3948-3
• Eilertsen, Ina Andrassy; Sveen, Anita; Strømme, Jonas Meier; Skotheim, Rolf I.; Nesbakken, Arild & Lothe, Ragnhild A (2018). Alternative splicing expands the prognostic impact of KRAS in microsatellite stable primary colorectal cancer. International Journal of Cancer.  ISSN 0020-7136.  144(4), s 841- 847 . doi: 10.1002/ijc.31809 Show summary

  KRAS mutation is a well‐known marker for poor response to targeted treatment and patient prognosis in microsatellite stable (MSS) colorectal cancer (CRC). However, variation in clinical outcomes among patients wild‐type for KRAS underlines that this is not a homogeneous population. Here, we evaluated the prognostic impact of KRAS alternative splicing in relation to mutation status in a single‐hospital series of primary MSS CRCs (N = 258). Using splicing‐sensitive microarrays and RNA sequencing, the relative expression of KRAS‐4A versus KRAS‐4B transcript variants was confirmed to be down‐regulated in CRC compared to normal colonic mucosa (N = 41; p ≤ 0.001). This was independent of mutation status, however, gene set enrichment analysis revealed that the effect of splicing on KRAS signaling was specific to the KRAS wild‐type subgroup, in which low relative KRAS‐4A expression was associated with a higher level of KRAS signaling (p = 0.005). In concordance, the prognostic value of KRAS splicing was also dependent on mutation status, and for patients with Stage I–III KRAS wild‐type MSS CRC, low relative KRAS‐4A expression was associated with inferior overall survival (HR: 2.36, 95% CI: 1.07–5.18, p = 0.033), a result not found in mutant cases (pinteraction = 0.026). The prognostic association in the wild‐type subgroup was independent of clinicopathological factors, including cancer stage in multivariable analysis (HR: 2.68, 95% CI: 1.18–6.09, p = 0.018). This suggests that KRAS has prognostic value beyond mutation status in MSS CRC, and highlights the importance of molecular heterogeneity in the clinically relevant KRAS wild‐type subgroup.

• Løvf, Marthe; Zhao, Sen; Axcrona, Ulrika; Johannessen, Bjarne; Bakken, Anne Cathrine; Carm, Kristina Totland; Hoff, Andreas Midbøe; Myklebost, Ola; Meza, Leonardo Zepeda; Lie, Kathrine; Axcrona, Karol; Lothe, Ragnhild A & Skotheim, Rolf I. (2018). Multifocal primary prostate cancer exhibits high degree of genomic heterogeneity. European Urology.  ISSN 0302-2838.  s 1- 8 . doi: 10.1016/j.eururo.2018.08.009
• Berg, Kaja Christine Graue; Eide, Peter Andreas Wold; Eilertsen, Ina Andrassy; Johannessen, Bjarne; Bruun, Jarle; Danielsen, Stine Aske; Bjørnslett, Merete Pauline; Meza, Leonardo Zepeda; Eknæs, Mette; Lind, Guro Elisabeth; Myklebost, Ola; Skotheim, Rolf I.; Sveen, Anita & Lothe, Ragnhild A (2017). Multi-omics of 34 colorectal cancer cell lines - a resource for biomedical studies. Molecular Cancer.  ISSN 1476-4598.  16:116, s 1- 16 . doi: 10.1186/s12943-017-0691-y
• Lågstad, Stian; Zhao, Sen; Hoff, Andreas Midbøe; Johannessen, Bjarne; Lingjærde, Ole Christian & Skotheim, Rolf I. (2017). Chimeraviz: A tool for visualizing chimeric RNA. Bioinformatics.  ISSN 1367-4803.  33(18), s 2954- 2956 . doi: 10.1093/bioinformatics/btx329 Show summary

  Advances in high-throughput RNA sequencing have enabled more efficient detection of fusion transcripts, but the technology and associated software used for fusion detection from sequencing data often yield a high false discovery rate. Good prioritization of the results is important, and this can be helped by a visualization framework that automatically integrates RNA data with known genomic features. Here we present chimeraviz, a Bioconductor package that automates the creation of chimeric RNA visualizations. The package supports input from nine different fusion-finder tools: deFuse, EricScript, InFusion, JAFFA, FusionCatcher, FusionMap, PRADA, SOAPfuse and STAR-FUSION.

• Moen, Line Victoria; Ramberg, Håkon Andre; Zhao, Sen; Grytli, Helene Hartvedt; Sveen, Anita; Berge, Viktor; Skotheim, Rolf I.; Tasken, Kristin Austlid & Skålhegg, Bjørn Steen (2017). Observed correlation between the expression levels of catalytic subunit, C?2, of cyclic adenosine monophosphate-dependent protein kinase and prostate cancer aggressiveness. Urologic Oncology.  ISSN 1078-1439.  35(3), s 111.e1- 111.e8 . doi: 10.1016/j.urolonc.2016.10.002 Show summary

  Background As an intracellular human pathogen, Mycobacterium tuberculosis (Mtb) is facing multiple stressful stimuli inside the macrophage and the granuloma. Understanding Mtb responses to stress is essential to identify new virulence factors and pathways that play a role in the survival of the tubercle bacillus. The main goal of this study was to map the regulatory networks of differentially expressed (DE) transcripts in Mtb upon various forms of genotoxic stress. We exposed Mtb cells to oxidative (H2O2 or paraquat), nitrosative (DETA/NO), or alkylation (MNNG) stress or mitomycin C, inducing double-strand breaks in the DNA. Total RNA was isolated from treated and untreated cells and subjected to high-throughput deep sequencing. The data generated was analysed to identify DE genes encoding mRNAs, non-coding RNAs (ncRNAs), and the genes potentially targeted by ncRNAs. Results The most significant transcriptomic alteration with more than 700 DE genes was seen under nitrosative stress. In addition to genes that belong to the replication, recombination and repair (3R) group, mainly found under mitomycin C stress, we identified DE genes important for bacterial virulence and survival, such as genes of the type VII secretion system (T7SS) and the proline-glutamic acid/proline-proline-glutamic acid (PE/PPE) family. By predicting the structures of hypothetical proteins (HPs) encoded by DE genes, we found that some of these HPs might be involved in mycobacterial genome maintenance. We also applied a state-of-the-art method to predict potential target genes of the identified ncRNAs and found that some of these could regulate several genes that might be directly involved in the response to genotoxic stress. Conclusions Our study reflects the complexity of the response of Mtb in handling genotoxic stress. In addition to genes involved in genome maintenance, other potential key players, such as the members of the T7SS and PE/PPE gene family, were identified. This plethora of responses is detected not only at the level of DE genes encoding mRNAs but also at the level of ncRNAs and their potential targets.

• Smebye, Marianne Lislerud; Agostini, Antonio; Johannessen, Bjarne; Thorsen, Jim; Davidson, Ben; Tropé, Claes Gøran; Heim, Sverre; Skotheim, Rolf I. & Micci, Francesca (2017). Involvement of DPP9 in gene fusions in serous ovarian carcinoma. BMC Cancer.  ISSN 1471-2407.  17(1) . doi: 10.1186/s12885-017-3625-6
• Smebye, Marianne Lislerud; Haugom, Lisbeth; Davidson, Ben; Tropé, Claes Gøran; Heim, Sverre; Skotheim, Rolf I. & Micci, Francesca (2017). Bilateral ovarian carcinomas differ in the expression of metastasis-related genes. Oncology Letters.  ISSN 1792-1074.  13(1), s 184- 190 . doi: 10.3892/ol.2016.5384
• Sveen, Anita; Johannessen, Bjarne; Tengs, Torstein; Danielsen, Stine Aske; Eilertsen, Ina Andrassy; Lind, Guro Elisabeth; Berg, Kaja Christine Graue; Leithe, Edward; Meza, Leonardo Zepeda; Domingo, Enric; Myklebost, Ola; Kerr, David; Tomlinson, Ian; Nesbakken, Arild; Skotheim, Rolf I. & Lothe, Ragnhild A (2017). Multilevel genomics of colorectal cancers with microsatellite instability – clinical impact of JAK1 mutations and consensus molecular subtype 1. Genome Medicine.  ISSN 1756-994X.  9(1) . doi: 10.1186/s13073-017-0434-0
• Zhao, Sen; Løvf, Marthe; Carm, Kristina Totland; Bakken, Anne Cathrine; Hoff, Andreas Midbøe & Skotheim, Rolf I. (2017). Novel transcription-induced fusion RNAs in prostate cancer. OncoTarget.  ISSN 1949-2553.  8(30), s 49133- 49143 . doi: 10.18632/oncotarget.17099
• Hoff, Andreas Midbøe; Alagaratnam, Sharmini; Zhao, Sen; Bruun, Jarle; Andrews, PW; Lothe, Ragnhild A & Skotheim, Rolf Inge (2016). Identification of novel fusion genes in testicular germ cell tumors. Cancer Research.  ISSN 0008-5472.  76(1), s 108- 116 . doi: 10.1158/0008-5472.CAN-15-1790
• Lorenz, Susanne; Barøy, Tale; Sun, Jinchang; Nome, Torfinn; Vodak, Daniel; Bryne, Jan Christian; Håkelien, Anne-Mari; Fernandez-Cuesta, Lynnette; Möhlendick, B; Rieder, H; Szuhai, K; Zaikova, Olga; Ahlquist, Terje Cruickshank; Thomassen, Gard O Sundby; Skotheim, Rolf Inge; Lothe, Ragnhild A; Tarpey, P; Campbell, P.; Flanagan, A; Myklebost, Ola & Meza, Leonardo Zepeda (2016). Unscrambling the genomic chaos of osteosarcoma reveals extensive transcript fusion, recurrent rearrangements and frequent novel TP53 aberrations. OncoTarget.  ISSN 1949-2553.  7(5), s 5273- 5288 . doi: 10.18632/oncotarget.6567 Show summary

  In contrast to many other sarcoma subtypes, the chaotic karyotypes of osteosarcoma have precluded the identification of pathognomonic translocations. We here report hundreds of genomic rearrangements in osteosarcoma cell lines, showing clear characteristics of microhomology-mediated break-induced replication (MMBIR) and end-joining repair (MMEJ) mechanisms. However, at RNA level, the majority of the fused transcripts did not correspond to genomic rearrangements, suggesting the involvement of trans-splicing, which was further supported by typical trans-splicing characteristics. By combining genomic and transcriptomic analysis, certain recurrent rearrangements were identified and further validated in patient biopsies, including a PMP22-ELOVL5 gene fusion, genomic structural variations affecting RB1, MTAP/CDKN2A and MDM2, and, most frequently, rearrangements involving TP53. Most cell lines (7/11) and a large fraction of tumor samples (10/25) showed TP53 rearrangements, in addition to somatic point mutations (6 patient samples, 1 cell line) and MDM2 amplifications (2 patient samples, 2 cell lines). The resulting inactivation of p53 was demonstrated by a deficiency of the radiation-induced DNA damage response. Thus, TP53 rearrangements are the major mechanism of p53 inactivation in osteosarcoma. Together with active MMBIR and MMEJ, this inactivation probably contributes to the exceptional chromosomal instability in these tumors. Although rampant rearrangements appear to be a phenotype of osteosarcomas, we demonstrate that among the huge number of probable passenger rearrangements, specific recurrent, possibly oncogenic, events are present. For the first time the genomic chaos of osteosarcoma is characterized so thoroughly and delivered new insights in mechanisms involved in osteosarcoma development and may contribute to new diagnostic and therapeutic strategies.

• Ramberg, Håkon Andre; Grytli, Helene Hartvedt; Nygård, Ståle; Wang, Wanzhong; Øgren, Hans Olav; Zhao, Sen; Løvf, Marthe; Katz, Betina; Skotheim, Rolf I.; Bjartell, Anders; Eri, Lars Magne; Berge, Viktor; Svindland, Aud & Tasken, Kristin Austlid (2016). PBX3 is a putative biomarker of aggressive prostate cancer. International Journal of Cancer.  ISSN 0020-7136.  139(8), s 1810- 1820 . doi: 10.1002/ijc.30220
• Sveen, Anita; Kilpinen, Sami; Ruusulehto, Anja; Lothe, Ragnhild A & Skotheim, Rolf Inge (2016). Aberrant RNA splicing in cancer; Expression changes and driver mutations of splicing factor genes. Oncogene.  ISSN 0950-9232.  35(19), s 2413- 2427 . doi: 10.1038/onc.2015.318
• Brabrand, Sigmund; Johannessen, Bjarne; Axcrona, Ulrika; Kraggerud, Sigrid M.; Berg, Kaja Christine Graue; Bakken, Anne Cathrine; Bruun, Jarle; Fosså, Sophie Dorothea; Lothe, Ragnhild A; Lehne, Gustav & Skotheim, Rolf Inge (2015). Exome sequencing of bilateral testicular germ cell tumors suggests independent development lineages. Neoplasia.  ISSN 1522-8002.  17(2), s 167- 174 . doi: 10.1016/j.neo.2014.12.005
• Bruun, Jarle; Kolberg, Matthias; Ahlquist, Terje Cruickshank; Røyrvik, Ellen Christine; Nome, Torfinn; Leithe, Edward; Lind, Guro Elisabeth; Merok, Marianne Aarstad; Rognum, Torleiv Ole; Bjørkøy, Geir; Johansen, Terje; Lindblom, Annika; Sun, X-F.; Svindland, Aud; Liestøl, Knut; Nesbakken, Arild; Skotheim, Rolf Inge & Lothe, Ragnhild A (2015). Regulator of chromosome condensation 2 identifies high-risk patients within both major phenotypes of colorectal cancer. Clinical Cancer Research.  ISSN 1078-0432.  21(16), s 3759- 3770 . doi: 10.1158/1078-0432.CCR-14-3294
• Cekaite, Lina; Eide, Peter Andreas Wold; Lind, Guro Elisabeth; Skotheim, Rolf I. & Lothe, Ragnhild A (2015). MicroRNAs as growth regulators, their function and biomarker status in colorectal cancer. OncoTarget.  ISSN 1949-2553.  7(6), s 6476- 6505 . doi: 10.18632/oncotarget.6390
• Hoff, Andreas Midbøe; Johannessen, Bjarne; Alagaratnam, Sharmini; Zhao, Sen; Nome, Torfinn; Løvf, Marthe; Bakken, Anne Cathrine; Hektoen, Merete; Sveen, Anita; Lothe, Ragnhild A & Skotheim, Rolf Inge (2015). Novel RNA variants in colorectal cancers. OncoTarget.  ISSN 1949-2553.  6(34), s 36587- 36602 . doi: 10.18632/oncotarget.5500
• Johannessen, Bjarne; Sveen, Anita & Skotheim, Rolf Inge (2015). Tin: An R package for transcriptome instability analysis. Cancer Informatics.  ISSN 1176-9351.  14, s 109- 112 . doi: 10.4137/CIN.S31363
• Kolberg, Matthias; Høland, Maren; Lind, Guro Elisabeth; Ågesen, Trude Holmeide; Skotheim, Rolf Inge; Hall, Kirsten Sundby; Mandahl, Nils; Smeland, Sigbjørn; Mertens, Fredrik; Davidson, Ben & Lothe, Ragnhild A (2015). Protein expression of BIRC5, TK1, and TOP2A in malignant peripheral nerve sheath tumours - A prognostic test after surgical resection. Molecular Oncology.  ISSN 1574-7891.  9(6), s 1129- 1139 . doi: 10.1016/j.molonc.2015.02.005
• Mesquita, Diana; Barros-Silva, João D.; Santos, Joana; Skotheim, Rolf Inge; Lothe, Ragnhild A; Paulo, Paula & Teixeira, Manuel (2015). Specific and redundant activities of ETV1 and ETV4 in prostate cancer aggressiveness revealed by co-overexpression cellular contexts. OncoTarget.  ISSN 1949-2553.  6(7), s 5217- 5236 . doi: 10.18632/oncotarget.2847
• Munkley, Jennifer; Oltean, Sebastian; Vodak, Daniel; Wilson, Brian T.; Livermore, Karen E.; Zhou, Yan; Star, Eleanor; Floros, Vasileios I.; Johannessen, Bjarne; Knight, Bridget; McCullagh, Paul; McGrath, John; Crundwell, Malcolm; Skotheim, Rolf Inge; Robson, Craig N.; Leung, Hing Y.; Harries, Lorna W.; Rajan, Prabhakar; Mills, Ian Geoffrey & Elliott, David J. (2015). The androgen receptor controls expression of the cancerassociated sTn antigen and cell adhesion through induction of ST6GalNAc1 in prostate cancer. OncoTarget.  ISSN 1949-2553.  6(33), s 34358- 34374 . doi: 10.18632/oncotarget.6024 Full text in Research Archive.
• Rounge, Trine Ballestad; Furu, Kari; Skotheim, Rolf Inge; Haugen, Trine B.; Grotmol, Tom & Enerly, Espen (2015). Profiling of the small RNA populations in human testicular germ cell tumors shows global loss of piRNAs. Molecular Cancer.  ISSN 1476-4598.  14(153) . doi: 10.1186/s12943-015-0411-4 Full text in Research Archive.
• Løvf, Marthe; Nome, Torfinn; Bruun, Jarle; Eknæs, Mette; Bakken, Anne Cathrine; Mpindi, John-Patrick; Kilpinen, Sami; Rognum, Torleiv Ole; Nesbakken, Arild; Kallioniemi, Olli; Lothe, Ragnhild A & Skotheim, Rolf Inge (2014). A novel transcript, VNN1-AB, as a biomarker for colorectal cancer. International Journal of Cancer.  ISSN 0020-7136.  135(9), s 2077- 2084 . doi: 10.1002/ijc.28855
• Nome, Torfinn; Hoff, Andreas Midbøe; Bakken, Anne Cathrine; Rognum, Torleiv Ole; Nesbakken, Arild & Skotheim, Rolf Inge (2014). High frequency of fusion transcripts involving TCF7L2 in colorectal cancer: Novel fusion partner and splice variants. PLoS ONE.  ISSN 1932-6203.  9(3) . doi: 10.1371/journal.pone.0091264 Full text in Research Archive.
• Oppelt, Angela; Haugsten, Ellen Margrethe; Zech, Tobias; Danielsen, Håvard Emil; Sveen, Anita; Lobert, Viola Helene; Skotheim, Rolf Inge & Wesche, Jørgen (2014). PIKfyve, MTMR3 and their product PtdIns5P regulate cancer cell migration and invasion through activation of Rac1. Biochemical Journal.  ISSN 0264-6021.  461(3), s 383- 390 . doi: 10.1042/BJ20140132
• Smebye, Marianne Lislerud; Sveen, Anita; Haugom, Lisbeth; Davidson, Ben; Tropé, Claes Gøran; Lothe, Ragnhild A; Heim, Sverre; Skotheim, Rolf Inge & Micci, Francesca (2014). Chromosome 19 rearrangements in ovarian carcinomas: Zinc finger genes are particularly targeted. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  53(7), s 558- 567 . doi: 10.1002/gcc.22166
• Sveen, Anita; Johannessen, Bjarne; Teixeira, Manuel; Lothe, Ragnhild A & Skotheim, Rolf Inge (2014). Transcriptome instability as a molecular pan-cancer characteristic of carcinomas. BMC Genomics.  ISSN 1471-2164.  15(1) . doi: 10.1186/1471-2164-15-672
• Vedeld, Hege Marie; Skotheim, Rolf Inge; Lothe, Ragnhild A & Lind, Guro Elisabeth (2014). The recently suggested intestinal cancer stem cell marker DCLK1 is an epigenetic biomarker for colorectal cancer. Epigenetics.  ISSN 1559-2294.  9(3), s 346- 350 . doi: 10.4161/epi.27582
• Alagaratnam, Sharmini; Harrison, Neil; Bakken, Anne Cathrine; Hoff, Andreas Midbøe; Jones, Mark; Sveen, Anita; Moore, Harry D.; Andrews, Peter W.; Lothe, Ragnhild A & Skotheim, Rolf Inge (2013). Transforming Pluripotency: An Exon-Level Study of Malignancy-Specific Transcripts in Human Embryonal Carcinoma and Embryonic Stem Cells. Stem Cells and Development.  ISSN 1547-3287.  22(7), s 1136- 1146 . doi: 10.1089/scd.2012.0369
• Chung, Charles C.; Kanetsky, Peter A.; Wang, Zhaoming; Hildebrandt, Michelle A.T.; Koster, Roelof; Skotheim, Rolf Inge; Kratz, Christian P.; Turnbull, Clare; Cortessis, Victoria K.; Bakken, Anne Cathrine; Bishop, D. Timothy; Cook, Michael B.; Erickson, R. Loren; Fosså, Sophie Dorothea; Jacobs, Kevin B.; Korde, Larissa A.; Kraggerud, Sigrid M.; Lothe, Ragnhild A; Loud, Jennifer T.; Rahman, Nazneen; Skinner, Eila C.; Thomas, Duncan C.; Wu, Xifeng; Yeager, Meredith; Schumacher, Frecrick R.; Greene, Mark H.; Schwartz, Stephen M.; McGlynn, Katherine A.; Chanock, Stephen J. & Nathanson, Katherine L. (2013). Meta-analysis identifies four new loci associated with testicular germ cell tumor. Nature Genetics.  ISSN 1061-4036.  45(6), s 680- 685 . doi: 10.1038/ng.2634
• Kraggerud, Sigrid M.; Høi-Hansen, Christina E.; Alagaratnam, Sharmini; Skotheim, Rolf Inge; Abeler, Vera Maria; Rajpert-De Meyts, Ewa & Lothe, Ragnhild A (2013). Molecular characteristics of malignant ovarian germ cell tumors and comparison with testicular counterparts : implications for pathogenesis. Endocrine reviews.  ISSN 0163-769X.  34(3), s 339- 376 . doi: 10.1210/er.2012-1045
• Løvf, Marthe; Thomassen, Gard O Sundby; Mertens, Fredrik; Cerveira, Nuno; Teixeira, Manuel; Lothe, Ragnhild A & Skotheim, Rolf Inge (2013). Assessment of Fusion Gene Status in Sarcomas Using a Custom Made Fusion Gene Microarray. PLoS ONE.  ISSN 1932-6203.  8(8) . doi: 10.1371/journal.pone.0070649
• Nome, Torfinn; Thomassen, Gard O Sundby; Bruun, Jarle; Ahlquist, Terje Cruickshank; Bakken, Anne Cathrine; Hoff, Andreas Midbøe; Rognum, Torleiv Ole; Nesbakken, Arild; Lorenz, Susanne; Sun, Jinchang; Barros-Silva, João D.; Lind, Guro Elisabeth; Myklebost, Ola; Teixeira, Manuel; Meza-Zepeda, Leonardo Andrés; Lothe, Ragnhild A & Skotheim, Rolf Inge (2013). Common fusion transcripts identified in colorectal cancer cell lines by high throughput RNA sequencing. Translational Oncology.  ISSN 1936-5233.  6(5), s 546- 553 . doi: 10.1593/tlo.13457 Full text in Research Archive.
• Paulo, Paula; Bakken, Anne Cathrine; Cerveira, Nuno; Løvf, Marthe; Henrique, Rui; Jerónimo, Carmen; Lothe, Ragnhild A; Skotheim, Rolf Inge; Teixeira, Manuel & Barros-Silva, João D. (2013). Novel 5 ' Fusion Partners of ETV1 and ETV4 in Prostate Cancer. Neoplasia.  ISSN 1522-8002.  15(7), s 720- 726 . doi: 10.1593/neo.13232
• Schumacher, Frecrick R.; Wang, Zhaoming; Skotheim, Rolf Inge; Koster, Roelof; Chung, Charles C.; Hildebrandt, Michelle A.T.; Kratz, Christian P.; Bakken, Anne Cathrine; Bishop, D. Timothy; Cook, Michael B.; Erickson, R. Loren; Fosså, Sophie Dorothea; Greene, Mark H.; Jacobs, Kevin B.; Kanetsky, Peter A.; Kolonel, Laurence N.; Loud, Jennifer T.; Korde, Larissa A.; Le Marchand, Loïc; Lewinger, Juan Pablo; Lothe, Ragnhild A; Pike, Malcolm C.; Rahman, Nazneen; Rubertone, Mark V.; Schwartz, Stephen M.; Siegmund, Kimberly D.; Skinner, Eila C.; Turnbull, Clare; Van den Berg, David J.; Wu, Xifeng; Yeager, Meredith; Nathanson, Katherine L.; Chanock, Stephen J.; Cortessis, Victoria K. & McGlynn, Katherine A. (2013). Testicular germ cell tumor susceptibility associated with the UCK2 locus on chromosome 1q23. Human Molecular Genetics.  ISSN 0964-6906.  22(13), s 2748- 2753 . doi: 10.1093/hmg/ddt109
• Sveen, Anita; Nesbakken, Arild; Ågesen, Trude Holmeide; Guren, Marianne; Tveit, Magne Kjell; Skotheim, Rolf Inge & Lothe, Ragnhild A (2013). Anticipating the Clinical Use of Prognostic Gene Expression-Based Tests for Colon Cancer Stage II and III: Is Godot Finally Arriving?. Clinical Cancer Research.  ISSN 1078-0432.  19(24), s 6669- 6677 . doi: 10.1158/1078-0432.CCR-13-1769
• Camões, Maria J; Paulo, Paula; Ribeiro, Franclim R; Barros-Silva, Joao D.; Almeida, Mafalda; Costa, Vera L; Cerveira, Nuno; Skotheim, Rolf Inge; Lothe, Ragnhild A; Henrique, Rui; Jeronimo, Carmen & Teixeira, Manuel (2012). Potential Downstream Target Genes of Aberrant ETS Transcription Factors Are Differentially Affected in Ewing's Sarcoma and Prostate Carcinoma. PLoS ONE.  ISSN 1932-6203.  7(11) . doi: 10.1371/journal.pone.0049819
• Cekaite, Lina; Rantala, Juha K.; Bruun, Jarle; Guriby, Marianne; Ågesen, Trude Holmeide; Danielsen, Stine Aske; Lind, Guro Elisabeth; Nesbakken, Arild; Kallioniemi, Olli; Lothe, Ragnhild A & Skotheim, Rolf Inge (2012). MiR-9,-31, and-182 Deregulation Promote Proliferation and Tumor Cell Survival in Colon Cancer. Neoplasia.  ISSN 1522-8002.  14(9), s 868- U126 . doi: 10.1593/neo.121094
• Celestino, Ricardo; Sigstad, Eva; Løvf, Marthe; Thomassen, Gard O Sundby; Kotanska-Grøholt, Krystyna; Jørgensen, Lars Hilmar; Berner, Aasmund; Castro, Patrícia; Lothe, Ragnhild A; Bjøro, Trine; Sobrinho-Simões, Manuel; Soares, Paula & Skotheim, Rolf Inge (2012). Survey of 548 oncogenic fusion transcripts in thyroid tumors supports the importance of the already established thyroid fusions genes. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  51(12), s 1154- 1164 . doi: 10.1002/gcc.22003
• Matheu, Ander; Collado, Manuel; Wise, Clare; Manterola, Lorea; Cekaite, Lina; Tye, Angela J.; Canamero, Marta; Bujanda, Luis; Schedl, Andreas; Cheah, Kathryn S.E.; Skotheim, Rolf Inge; Lothe, Ragnhild A; de Munain, Adolfo López; Briscoe, James; Serrano, Manuel & Lovell-Badge, Robin (2012). Oncogenicity of the Developmental Transcription Factor Sox9. Cancer Research.  ISSN 0008-5472.  72(5), s 1301- 1315 . doi: 10.1158/0008-5472.CAN-11-3660
• Nyquist, Kaja Beate; Panagopoulos, Ioannis; Thorsen, Jim; Haugom, Lisbeth; Gorunova, Ludmila; Bjerkehagen, Bodil; Fosså, Alexander; Guriby, Marianne; Nome, Torfinn; Lothe, Ragnhild A; Skotheim, Rolf Inge; Heim, Sverre & Micci, Francesca (2012). Whole-Transcriptome Sequencing Identifies Novel IRF2BP2-CDX1 Fusion Gene Brought about by Translocation t(1;5)(q42;q32) in Mesenchymal Chondrosarcoma. PLoS ONE.  ISSN 1932-6203.  7(11) . doi: 10.1371/journal.pone.0049705
• Paulo, Paula; Barros-Silva, Joao D.; Ribeiro, Franclim R; Ramalho-Carvalho, Joao; Jeronimo, Carmen; Henrique, Rui; Lind, Guro Elisabeth; Skotheim, Rolf Inge; Lothe, Ragnhild A & Teixeira, Manuel (2012). FLI1 is a novel ETS transcription factor involved in gene fusions in prostate cancer. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  51(3), s 240- 249 . doi: 10.1002/gcc.20948
• Paulo, Paula; Ribeiro, Franclim R; Santos, Joana; Mesquita, Diana; Almeida, Mafalda; Barros-Silva, Joao D.; Itkonen, Harri; Henrique, Rui; Jeronimo, Carmen; Sveen, Anita; Mills, Ian Geoffrey; Skotheim, Rolf Inge; Lothe, Ragnhild A & Teixeira, Manuel (2012). Molecular Subtyping of Primary Prostate Cancer Reveals Specific and Shared Target Genes of Different ETS Rearrangements. Neoplasia.  ISSN 1522-8002.  14(7), s 600- +
• Sveen, Anita; Bakken, Anne Cathrine; Ågesen, Trude Holmeide; Lind, Guro Elisabeth; Nesbakken, Arild; Nordgård, Oddmund; Brackmann, Stephan; Rognum, Torleiv Ole; Lothe, Ragnhild A & Skotheim, Rolf Inge (2012). The exon-level biomarker SLC39A14 has organ-confined cancer-specificity in colorectal cancer. International Journal of Cancer.  ISSN 0020-7136.  131(6), s 1479- 1485 . doi: 10.1002/ijc.27399
• Sveen, Anita; Ågesen, Trude Holmeide; Nesbakken, Arild; Meling, Gunn Iren; Rognum, Torleiv Ole; Liestøl, Knut; Skotheim, Rolf Inge & Lothe, Ragnhild A (2012). ColoGuidePro: A Prognostic 7-Gene Expression Signature for Stage III Colorectal Cancer Patients. Clinical Cancer Research.  ISSN 1078-0432.  18(21), s 6001- 6010 . doi: 10.1158/1078-0432.CCR-11-3302
• Ågesen, Trude Holmeide; Sveen, Anita; Merok, Marianne Aarstad; Lind, Guro Elisabeth; Nesbakken, Arild; Skotheim, Rolf Inge & Lothe, Ragnhild A (2012). ColoGuideEx: a robust gene classifier specific for stage II colorectal cancer prognosis. Gut.  ISSN 0017-5749.  61(11), s 1560- 1567 . doi: 10.1136/gutjnl-2011-301179
• Alagaratnam, Sharmini; Lind, Guro Elisabeth; Kraggerud, Sigrid M.; Lothe, Ragnhild A & Skotheim, Rolf Inge (2011). The testicular germ cell tumour transcriptome. International Journal of Andrology.  ISSN 0105-6263.  34(4pt2), s e133- e151 . doi: 10.1111/j.1365-2605.2011.01169.x
• Danielsen, Stine Aske; Cekaite, Lina; Ågesen, Trude Holmeide; Sveen, Anita; Nesbakken, Arild; Thiis-Evensen, Espen; Skotheim, Rolf Inge; Lind, Guro Elisabeth & Lothe, Ragnhild A (2011). Phospholipase C Isozymes Are Deregulated in Colorectal Cancer - Insights Gained from Gene Set Enrichment Analysis of the Transcriptome. PLoS ONE.  ISSN 1932-6203.  6(9) . doi: 10.1371/journal.pone.0024419
• Lind, Guro Elisabeth; Danielsen, Stine Aske; Ahlquist, Terje Cruickshank; Merok, Marianne Aarstad; Andresen, Kim; Skotheim, Rolf Inge; Hektoen, Merete; Rognum, Torleiv Ole; Meling, Gunn Iren; Hoff, Geir; Bretthauer, Michael; Thiis-Evensen, Espen; Nesbakken, Arild & Lothe, Ragnhild A (2011). Identification of an epigenetic biomarker panel with high sensitivity and specificity for colorectal cancer and adenomas. Molecular Cancer.  ISSN 1476-4598.  10 . doi: 10.1186/1476-4598-10-85
• Løvf, Marthe; Thomassen, Gard O Sundby; Bakken, Anne Cathrine; Celestino, Ricardo; Fioretos, Thoas; Lind, Guro Elisabeth; Lothe, Ragnhild A & Skotheim, Rolf Inge (2011). Fusion Gene Microarray Reveals Cancer Type-Specificity Among Fusion Genes. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  50(5), s 348- 357 . doi: 10.1002/gcc.20860
• Ribeiro, Franclim R; Paulo, Paula; Costa, Vera L; Barros-Silva, Joao D.; Ramalho-Carvalho, Joao; Jeronimo, Carmen; Henrique, Rui; Lind, Guro Elisabeth; Skotheim, Rolf Inge; Lothe, Ragnhild A & Teixeira, Manuel (2011). Cysteine-Rich Secretory Protein-3 (CRISP3) Is Strongly Up-Regulated in Prostate Carcinomas with the TMPRSS2-ERG Fusion Gene. PLoS ONE.  ISSN 1932-6203.  6(7), s e22317 . doi: 10.1371/journal.pone.0022317
• Sagona, Antonia; Nezis, Ioannis; Bache, Kristi Cecilie Grønvold; Haglund, Kaisa; Bakken, Anne Cathrine; Skotheim, Rolf Inge & Stenmark, Harald (2011). A Tumor-Associated Mutation of FYVE-CENT Prevents Its Interaction with Beclin 1 and Interferes with Cytokinesis. PLoS ONE.  ISSN 1932-6203.  6(3) . doi: 10.1371/journal.pone.0017086
• Sveen, Anita; Ågesen, Trude Holmeide; Nesbakken, Arild; Rognum, Torleiv Ole; Lothe, Ragnhild A & Skotheim, Rolf Inge (2011). Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels and patient survival. Genome Medicine.  ISSN 1756-994X.  3(5) . doi: 10.1186/gm248
• Ågesen, Trude Holmeide; Berg, Marianne; Clancy, Trevor; Thiis-Evensen, Espen; Cekaite, Lina; Lind, Guro Elisabeth; Nesland, Jahn M; Bakka, Arne Olav; Mala, Tom; Hauss, Hans Joakim; Fetveit, T; Vatn, Morten H; Hovig, Eivind; Nesbakken, Arild; Lothe, Ragnhild A & Skotheim, Rolf Inge (2011). CLC and IFNAR1 are differentially expressed and a global immunity score is distinct between early- and late-onset colorectal cancer. Genes and Immunity.  ISSN 1466-4879.  12(8), s 653- 662 . doi: 10.1038/gene.2011.43
• Sagona, Antonia; Nezis, Jonnis P; Pedersen, Nina Marie; Liestøl, Knut; Poulton, J; Rusten, Tor Erik; Skotheim, Rolf Inge; Raiborg, Camilla & Stenmark, Harald Alfred (2010). PtdIns(3)P controls cytokinesis through KIF13A-mediated recruitment of FYVE-CENT to the midbody. Nature Cell Biology.  ISSN 1465-7392.  12(4), s 362- U140 . doi: 10.1038/ncb2036
• Auensen, Espen; Skotheim, Rolf Inge; Schjølberg, Aasa Rambæk; Røislien, Jo; Lothe, Ragnhild A & Clausen, Ole Petter Fraas (2010). Spindle proteins are differentially expressed in the various histological subtypes of testicular germ cell tumors. Journal of Carcinogenesis.  ISSN 1477-3163.  9(1), s 1- 1 . doi: 10.4103/1477-3163.60358
• Berg, Marianne; Ågesen, Trude Holmeide; Thiis-Evensen, Espen; Merok, Marianne Aarstad; Teixeira, Manuel; Vatn, Morten H; Nesbakken, Arild; Skotheim, Rolf Inge & Lothe, Ragnhild A (2010). Distinct high resolution genome profiles of early onset and late onset colorectal cancer integrated with gene expression data identify candidate susceptibility loci. Molecular Cancer.  ISSN 1476-4598.  9 . doi: 10.1186/1476-4598-9-100
• Brekke, Helge Roar; Ribeiro, Franclim R; Kolberg, Matthias; Ågesen, Trude H.; Lind, Guro Elisabeth; Eknæs, Mette; Hall, Kirsten Sundby; Bjerkehagen, Bodil; van den Berg, Eva; Teixeira, Manuel; Mandahl, Nils; Smeland, Sigbjørn; Mertens, Fredrik; Skotheim, Rolf Inge & Lothe, Ragnhild A (2010). Genomic Changes in Chromosomes 10, 16, and X in Malignant Peripheral Nerve Sheath Tumors Identify a High-Risk Patient Group. Journal of Clinical Oncology.  ISSN 0732-183X.  28(9), s 1573- 1582 . doi: 10.1200/JCO.2009.24.8989
• Costa, Vera L; Henrique, Rui; Danielsen, Stine Aske; Duarte-Pereira, S; Eknæs, Mette; Skotheim, Rolf Inge; Rodrigues, A; Magalhäes, J.S; Oliveira, J; Lothe, Ragnhild A; Teixeira, Manuel; Jeronimo, C & Lind, Guro Elisabeth (2010). Three Epigenetic Biomarkers, GDF15, TMEFF2, and VIM, Accurately Predict Bladder Cancer from DNA-Based Analyses of Urine Samples. Clinical Cancer Research.  ISSN 1078-0432.  16(23), s 5842- 5851 . doi: 10.1158/1078-0432.CCR-10-1312
• Micci, Francesca; Skotheim, Rolf Inge; Haugom, Lisbeth; Weimer, J; Eibak, Anne Mette E.; Abeler, Vera Maria; Tropé, Claes Gøran; Arnold, N; Lothe, Ragnhild A & Heim, Sverre (2010). Array-CGH Analysis of Microdissected Chromosome 19 Markers in Ovarian Carcinoma Identifies Candidate Target Genes. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  49(11), s 1046- 1053 . doi: 10.1002/gcc.20813
• Alagaratnam, Sharmini; Hardy, JR; Lothe, Ragnhild A; Skotheim, Rolf Inge & Byrne, JA (2009). TPD52, a candidate gene from genomic studies, is overexpressed in testicular germ cell tumours. Molecular and Cellular Endocrinology.  ISSN 0303-7207.  306(1-2), s 75- 80 . doi: 10.1016/j.mce.2008.10.043
• Brekke, Helge Roar; Kolberg, Matthias; Skotheim, Rolf Inge; Hall, Kirsten Sundby; Bjerkehagen, Bodil; Risberg, Bjørn; Domanski, Henryk A; Mandahl, Nils; Liestøl, Knut; Smeland, Sigbjørn; Danielsen, Håvard Emil; Mertens, Fredrik & Lothe, Ragnhild A (2009). Identification of p53 as a strong predictor of survival for patients with malignant peripheral nerve sheath tumors. Neuro-Oncology.  ISSN 1522-8517.  11(5), s 514- 528 . doi: 10.1215/15228517-2008-127
• Godmann, M; Gashaw, I; Eildermann, K; Schweyer, S; Bergmann, M; Skotheim, Rolf Inge & Behr, R (2009). The pluripotency transcription factor Kruppel-like factor 4 is strongly expressed in intratubular germ cell neoplasia unclassified and seminoma. Molecular human reproduction.  ISSN 1360-9947.  15(8), s 479- 488 . doi: 10.1093/molehr/gap040
• Micci, Francesca; Weimer, J; Haugom, L; Skotheim, Rolf Inge; Grunewald, R; Abeler, Vera Maria; Silins, Ilvars; Lothe, Ragnhild A; Tropé, Claes Gøran; Arnold, N & Heim, Sverre (2009). Reverse Painting of Microidissected Chromosome 19 Markers in Ovarian Carcinoma Identifies a Complex Rearrangement Map. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  48(2), s 184- 193 . doi: 10.1002/gcc.20628
• Skotheim, Rolf Inge; Thomassen, Gard O Sundby; Eken, Marthe; Lind, Guro Elisabeth; Micci, Francesca; Ribeiro, FR; Cerveira, N; Teixeira, MR; Heim, Sverre; Rognes, Torbjørn & Lothe, Ragnhild A (2009). A universal assay for detection of oncogenic fusion transcripts by oligo microarray analysis. Molecular Cancer.  ISSN 1476-4598.  8 . doi: 10.1186/1476-4598-8-5 Full text in Research Archive.
• Ahlquist, Terje Cruickshank; Lind, Guro Elisabeth; Costa, Vera L; Meling, Gunn Iren; Vatn, Morten H; Hoff, Geir S; Rognum, Torleiv Ole; Skotheim, Rolf Inge; Thiis-Evensen, Espen & Lothe, Ragnhild A (2008). Gene methylation profiles of normal mucosa, and benign and malignant colorectal tumors identify early onset markers. Molecular Cancer.  ISSN 1476-4598.  7 . doi: 10.1186/1476-4598-7-94
• Lind, Gruo Elisabeth; Ahlquist, Terje Cruickshank; Kolberg, Matthias; Berg, Marianne; Lier, Mette Eknæs; Alonso, MA; Kallioniemi, A; Meling, Gunn Iren; Skotheim, Rolf Inge; Rognum, Torleiv Ole; Thiis-Evensen, E & Lothe, Ragnhild A (2008). Hypermethylated MAL gene - a silent marker of early colon tumorigenesis. Journal of Translational Medicine.  ISSN 1479-5876.  6, s 13 . doi: 10.1186/1479-5876-6-13
• Lind, Gruo Elisabeth; Skotheim, Rolf Inge & Lothe, Ragnhild A (2007). The epigenome of testicular germ cell tumors. Acta Pathologica, Microbiologica et Immunologica Scandinavica (APMIS).  ISSN 0903-4641.  115, s 1147- 1160
• Skotheim, Rolf Inge & Nees, M (2007). Alternative splicing in cancer: Noise, functional, or systematic?. International Journal of Biochemistry and Cell Biology.  ISSN 1357-2725.  39 . doi: 10.1016/j.biocel.2007.02.016
• Lind, GE; Skotheim, Rolf Inge; Fraga, Mario F; Abeler, Vera Maria; Esteller, M. & Lothe, Ragnhild A (2006). Novel epigenetically deregulated genes in testicular cancer include homeobox genes and SCGB3A1 (HIN-1). Journal of Pathology.  ISSN 0022-3417.  210(4), s 441- 449
• Skotheim, Rolf Inge; Autio, R; Lind, Gruo Elisabeth; Kraggerud, Sigrid M.; Andrews, PW; Monni, Outi; Kallioniemi, Olli-P & Lothe, Ragnhild A (2006). Novel genomic aberrations in testicular germ cell tumors by array-CGH, and associated gene expression changes. Cellular Oncology.  ISSN 1570-5870.  28(5-6), s 315- 326
• Hofer, M.D; Browne, T.J; Walsh, V; He, L; Skotheim, Rolf Inge; Lothe, Ragnhild A & Rubin, M.A (2005). Identification of two molecular groups of seminomas by using expression and tissue microarrays. Clinical Cancer Research.  ISSN 1078-0432.  11, s 5722- 5729
• Lind, Gruo Elisabeth; Skotheim, Rolf Inge; Fraga, Mario F; Abeler, Vera Maria; Henrique, Rui; Saatcioglu, Fahri; Manel, Esteller; Teixeira, Manuel R & Lothe, Ragnhild A (2005). The loss of NKX3.1 expression in testicular - and prostate - cancers is not caused by promoter hypermethylation. Molecular Cancer.  ISSN 1476-4598.  4(1), s 8 . doi: 10.1186/1476-4598-4-8
• Skotheim, Rolf Inge; Skotheim, Rolf Inge; Lind, Guro Elisabeth; Monni, O; Nesland, Jahn M; Abeler, Vera Maria; Fosså, Sophie Dorothea; Duale, N; Brunborg, G; Kallioniemi, I; Andrews, PW & Lothe, Ragnhild A (2005). Differentiation of human embryonal carcinomas in vitro and in vivo reveals expression profiles relevant to normal development. Cancer Research.  ISSN 0008-5472.  65, s 5588- 5598
• Kraggerud, Sigrid Marie; Lee, MP; Skotheim, Rolf Inge; Stenwig, Anna Elisabeth; Fosså, Sophie Dorothea; Feinberg, AP & Lothe, Ragnhild A (2003). Lack of parental origin specificity of altered alleles at 11p15 in testicular germ cell tumors. Cancer Genetics and Cytogenetics.  ISSN 0165-4608.  147(1), s 1- 8
• Skotheim, Rolf Inge; Abeler, Vera M; Nesland, Jahn M; Fosså, Sophie Dorothea; Holm, Ruth; Wagner, U; Flørenes, Vivi Ann; Aass, Nina; Kallioniemi, Olli-P. & Lothe, Ragnhild A (2003). Candidate genes for testicular cancer evaluated by in situ protein expression analyses or tissue microarrays. Neoplasia.  ISSN 1522-8002.  5(5), s 397- 404
• Skotheim, Rolf Inge; Kallioniemi, Anne; Bjerkhagen, Bodil; Mertens, Fredrik; Brekke, Helge R; Monni, Outi; Mousses, Spyro; Mandahl, Nils; Sæter, Gunnar; Nesland, Jahn M; Smeland, Sigbjørn; Kallioniemi, Olli-P & Lothe, Ragnhild A (2003). Topoisomerase-II alfa is upregulated in malignant peripheral nerve sheath tumors and associated with clinical outcome. Journal of Clinical Oncology.  ISSN 0732-183X.  21, s 4586- 4591
• Skotheim, Rolf Inge; Korkmaz, Kemal; Klokk, Tove Irene; Abeler, Vera M; Korlmaz, CG; Nesland, Jahn M; Fosså, Sophie Dorothea; Lothe, Ragnhild A & Saatcioglu, Fahri (2003). NKX3.1 expression is lost in testicular germ cell tumors. American Journal of Pathology.  ISSN 0002-9440.  163(6), s 2149- 2154
• Skotheim, Rolf Inge; Kallioniemi, A; Bjerkehagen, Bodil; Mertens, F; Brekke, HR; Monni, O; Mousses, S; Mandahl, N; Sæter, Gunnar; Nesland, Jahn M; Smeland, Sigbjørn; Kallioniemi, OP & Lothe, Ragnhild A (2003). Topoisomerase-II alpha is upregulated in malignant peripheral nerve sheath tumors and associated with clinical outcome. Journal of Clinical Oncology.  ISSN 0732-183X.  21, s 4586- 4591
• Kraggerud, Sigrid Marie; Skotheim, Rolf Inge; Szymanska, Jadwiga; Eknæs, Mette; Fosså, Sophie Dorothea; Stenwig, Anna Elisabeth; Peltomäki, Päivi & Lothe, Ragnhild A (2002). Genome profiles of familial/bilateral and sporadic testicular germ cell tumors. Genes, Chromosomes and Cancer.  ISSN 1045-2257.  34(2), s 168- 174 Show summary

  In order to investigate the genetics of testicular germ cell tumors (TGCTs), we examined 33 TGCTs, including 15familial/bilateral and 18 sporadic tumors, using comparative genomic hybridization. The frequencies of the histological subtypeswere comparable between the two groups. Gains of the whole or parts of chromosome 12 were found in 30 tumors (91%).Furthermore, increased copy number of the whole or parts of chromosomes 7, 8, 17, and X, and decreased copy number ofthe whole or parts of chromosomes 4, 11, 13, and 18 were observed in 50% of the tumors. Sixteen smallest regions ofoverlapping changes were delineated on 12 different chromosomes. The chromosomal copy numbers of familial/bilateral andsporadic TGCTs were comparable, suggesting similar genetic pathways to disease in both groups. However, significantdifferences were observed between the two main histological subgroups. Gains from 15q and 22q were associated withseminomas (P0.005 and P0.02, respectively), whereas gain of the proximal 17q (17q11.2¿21) and high-level amplificationfrom chromosome arm 12p, and losses from 10q were associated with nonseminomas (P 0.001, P 0.04, and P 0.03,respectively).

• Skotheim, Rolf Inge; Monni, Outi; Mousses, Spyro; Fosså, Sophie Dorothea; Kallioniemi, Olli-P.; Lothe, Ragnhild A & Kallioniemi, Anne (2002). New insights into testicular germ cell tumorigenesis from gene expression profiling. Cancer Research.  ISSN 0008-5472.  62(8), s 2359- 2364 Show summary

  We have recently shown that about half of the human testicular germ cell tumors (TGCTs) reveal DNA copy number increases affecting two distinct regions on chromosome arm 17q. In order to identify potential target genes with elevated expressions due to the extra copies, we constructed a cDNA microarray containing 636 genes and expressed sequence tags from chromosome 17. The expression patterns of 14 TGCTs, one carcinoma in situ, and 3 normal testis samples were examined, all with known chromosome 17 copy numbers. The growth factor receptor-bound protein 7 (GRB7) and junction plakoglobin (JUP) were the two most highly overexpressed genes in the TGCTs. GRB7 is tightly linked to ERBB2, and is coamplified and coexpressed with this gene in several cancer types. Interestingly, the expression levels of ERBB2 were not elevated in the TGCTs, suggesting that GRB7 might be target for this amplicon in TGCT. We also examined the expression levels of 512 additional genes located throughout the genome. Several genes novel to testicular tumorigenesis were consistently overexpressed, including prostate cancer overexpressed gene 1 (POV1) and the proto-oncogenes MYCL1 and MYBL2. We also confirmed that the proto-oncogenes CCND2 and MYCN are overexpressed in TGCTs. Finally, hierarchical cluster analysis of the gene expression data effectively distinguished among the known histological subtypes of TGCTs. In summary, this focused functional genomic characterization of TGCTs has lead to the identification of new gene targets associated with a common genomic rearrangement and revealed proto-oncogenes with potential clinical impact.

• Smith-Sørensen, Birgitte; Lind, G. E.; Skotheim, Rolf Inge; Fossa, S. D.; Fodstad, Øystein; Stenwig, Anna Elisabeth; Jakobsen, Kjetill Sigurd & Lothe, Ragnhild A (2002). Frequent promoter hypermethylation of the O-6-methylguanine-DNA methyltransferase (MGMT) gene in testicular cancer. Oncogene.  ISSN 0950-9232.  21(57), s 8878- 8884
• Skotheim, Rolf Inge; Diep, Chieu; Kraggerud, Sigrid Marie; Jakobsen, Kjetill Sigurd & Lothe, Ragnhild A (2001). Evaluation of loss of heterozygosity / allelic imbalance scoring in tumor DNA. Cancer Genetics and Cytogenetics.  ISSN 0165-4608.  127(1), s 68- 74

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• Rajpert-De Meyts, Ewa & Skotheim, Rolf I. (2018). Complex Polygenic Nature of Testicular Germ Cell Cancer Suggests Multifactorial Aetiology. European Urology.  ISSN 0302-2838.  73(6), s 832- 833 . doi: 10.1016/j.eururo.2018.02.023
• Rounge, Trine Ballestad; Furu, Kari; Skotheim, Rolf Inge; Haugen, Trine B.; Enerly, Espen & Grotmol, Tom (2015). Small RNA profiling of human testicular cancer tissue samples shows abundant tRNA fragments and global loss of piRNA.
• Skotheim, Rolf Inge; Meza-Zepeda, Leonardo Andrés; Hovig, Eivind; Lønning, Per Eystein; Lothe, Ragnhild A & Myklebost, Ola (2012). Genomsekvensering for persontilpasset kreftbehandling. Tidsskrift for Den norske legeforening.  ISSN 0029-2001.  132, s 2406- 2408 . doi: 10.4045/tidsskr.12.0784
• Skotheim, Rolf Inge; Nome, Torfinn; Thomassen, Gard O Sundby; Johannessen, Bjarne; Bakken, Anne Cathrine; Bruun, Jarle; Ahlquist, Terje Cruickshank; Meza-Zepeda, L. A.; Myklebost, Ola & Lothe, Ragnhild A (2012). Identification of Fusion Transcripts in Colorectal Cancer by Combined RNA-seq and Exon Microarray Analyses. European Journal of Cancer.  ISSN 0959-8049.  48, s S121- S121
• Berg, Marianne; Ågesen, Trude Holmeide; Danielsen, Stine Aske; Ahlquist, Terje Cruickshank; Merok, Marianne Aarstad; Mala, Tom; Thiis-Evensen, Espen; Nesbakken, Arild; Skotheim, Rolf Inge & Lothe, Ragnhild A (2010). Genome copy number variation and gene mutation profiling show different somatic development of colorectal cancers in young and elderly patients. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 201- 202
• Cekaite, Lina; Danielsen, Stine Aske; Ågesen, Trude Holmeide; Sveen, Anita; Thiis-Evensen, Espen; Merok, Marianne Aarstad; Nesbakken, Arild; Skotheim, Rolf Inge & Lothe, Ragnhild A (2010). New insights into molecular pathways of colorectal cancer from genome-level expression data. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 223- 223
• Kolberg, Matthias; Ågesen, Trude Holmeide; Brekke, Helge Roar; Skotheim, Rolf Inge; Hall, Kirsten Sundby; van den Berg, Eva; Mertens, Fredrik; Smeland, Sigbjørn; Lothe, Ragnhild A & Høland, Maren (2010). Prognostic value of gene expression targeted by gain of 17q sequences in malignant peripheral nerve sheath tumours. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 32- 32
• Løvf, Marthe; Thomassen, Gard O Sundby; Lind, Guro Elisabeth; Lothe, Ragnhild A & Skotheim, Rolf Inge (2010). An oligo microarray design for detection of known and putative oncogenic fusion transcripts. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 199- 199
• Paulo, Paula; Barros-Silva, João D.; Ribeiro, Franclim R; Ramalho-Carvalho, João; Mesquita, Bárbara; Jerónimo, Carmen; Henrique, Rui; Skotheim, Rolf Inge; Lothe, Ragnhild A & Teixeira, Manuel (2010). Quantitative expression analysis of nine ETS transcription factors and of the MYC and PTEN genes in a consecutive series of 200 prostate carcinomas. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 169- 169
• Ågesen, Trude Holmeide; Berg, Marianne; Cekaite, Lina; Thiis-Evensen, Espen; Merok, Marianne Aarstad; Nesbakken, Arild; Lothe, Ragnhild A & Skotheim, Rolf Inge (2010). Transcriptional profiling of early onset colorectal cancer identifies CLC as a potential cancer susceptibility gene. European Journal of Cancer.  ISSN 0959-8049.  8(5), s 205- 205
• Burum-Auensen, E; Skotheim, Rolf Inge; Schjolberg, AR; Roislien, JO; Lothe, Ragnhild A & Clausen, Ole Petter Fraas (2009). Spindle proteins show significant changes in expression during germ cell carcinogenesis and are differently expressed in the subgroups of testicular germ cell cancer. Acta Pathologica, Microbiologica et Immunologica Scandinavica (APMIS).  ISSN 0903-4641.  117(3), s 236- 237
• Skotheim, Rolf Inge; Eken, Marthe; Thomassen, Gard O Sundby; Lind, Guro Elisabeth & Lothe, Ragnhild A (2009). A universal assay for detection of oncogenic fusion transcripts by oligo microarray analysis. European Journal of Cancer.  ISSN 0959-8049.  7(2), s 147- 148
• Berg, Marianne; Agesen, TH; Nesbakken, Arild; Thiis-Evensen, E; Lothe, Ragnhild A & Skotheim, Rolf Inge (2008). DNA copy number profiling of early onset colorectal cancer. Cellular Oncology.  ISSN 1570-5870.  30(2), s 153- 154
• Skotheim, Rolf Inge & Lothe, Ragnhild A (2003). The testicular germ cell tumour genome. Invited review to the 5th Workshop on Carcinoma in Situ and Testicular Cancer. Acta Pathologica, Microbiologica et Immunologica Scandinavica (APMIS).  ISSN 0903-4641.  111, s 136- 151
• Thorstensen, L.; Skotheim, Rolf Inge & Lothe, Ragnhild A (2003). WNT-signalisering i kreftsvulster: Genetikk og epigenetikk. NBS-nytt.  ISSN 0801-3535.  27, s 12- 18
• Kraggerud, Sigrid Marie; Skotheim, Rolf Inge; Eknæs, Mette; Fosså, Sophie Dorothea & Lothe, Ragnhild A (2001). DNA copy number changes in familial/bilateral and sporadic testicular germ cell tumors.

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