Publications

Publications from OUS - Genome Biology Group (Skotheim)

47 publications found

Publications 2020

  1. Hoff AM, Kraggerud SM, Alagaratnam S, Berg KCG, Johannessen B, Høland M, Nilsen G, Lingjærde OC, Andrews PW, Lothe RA, Skotheim RI (2020)
    Frequent copy number gains of SLC2A3 and ETV1 in testicular embryonal carcinomas
    Endocr Relat Cancer (in press)
    DOI 10.1530/ERC-20-0064, PubMed 32580154
  2. Wise JF, Nakken S, Steen CB, Vodák D, Trøen G, Johannessen B, Lingjærde OC, Hilden V, Blaker YN, Bai B, Aasheim LB, Pasanen A, Lorenz S, Sveen A, Lothe RA, Myklebost O, Leppä S, Meza-Zepeda LA, Beiske K, Lawrence MS, Hovig E, Myklebust JH, Smeland EB, Holte H (2020)
    Mutational dynamics and immune evasion in diffuse large B-cell lymphoma explored in a relapse-enriched patient series
    Blood Adv, 4 (9), 1859-1866
    DOI 10.1182/bloodadvances.2019001325, PubMed 32374878

Publications 2019

  1. Brunsell TH, Sveen A, Bjørnbeth BA, Røsok BI, Danielsen SA, Brudvik KW, Berg KCG, Johannessen B, Cengija V, Abildgaard A, Guren MG, Nesbakken A, Lothe RA (2019)
    High Concordance and Negative Prognostic Impact of RAS/BRAF/PIK3CA Mutations in Multiple Resected Colorectal Liver Metastases
    Clin Colorectal Cancer, 19 (1), e26-e47
    DOI 10.1016/j.clcc.2019.09.003, PubMed 31982351
  2. Carm KT, Hoff AM, Bakken AC, Axcrona U, Axcrona K, Lothe RA, Skotheim RI, Løvf M (2019)
    Interfocal heterogeneity challenges the clinical usefulness of molecular classification of primary prostate cancer
    Sci Rep, 9 (1), 13579
    DOI 10.1038/s41598-019-49964-7, PubMed 31537872
  3. Eilertsen IA, Moosavi SH, Strømme JM, Nesbakken A, Johannessen B, Lothe RA, Sveen A (2019)
    Technical differences between sequencing and microarray platforms impact transcriptomic subtyping of colorectal cancer
    Cancer Lett, 469, 246-255
    DOI 10.1016/j.canlet.2019.10.040, PubMed 31678167
  4. Neckmann U, Wolowczyk C, Hall M, Almaas E, Ren J, Zhao S, Johannessen B, Skotheim RI, Bjørkøy G, Ten Dijke P, Holien T (2019)
    GREM1 is associated with metastasis and predicts poor prognosis in ER-negative breast cancer patients
    Cell Commun Signal, 17 (1), 140
    DOI 10.1186/s12964-019-0467-7, PubMed 31694641
  5. Smeby J, Sveen A, Eilertsen IA, Danielsen SA, Hoff AM, Eide PW, Johannessen B, Hektoen M, Skotheim RI, Guren MG, Nesbakken A, Lothe RA (2019)
    Transcriptional and functional consequences of TP53 splice mutations in colorectal cancer
    Oncogenesis, 8 (6), 35
    DOI 10.1038/s41389-019-0141-3, PubMed 31092812

Publications 2018

  1. Celestino R, Nome T, Pestana A, Hoff AM, Gonçalves AP, Pereira L, Cavadas B, Eloy C, Bjøro T, Sobrinho-Simões M, Skotheim RI, Soares P (2018)
    CRABP1, C1QL1 and LCN2 are biomarkers of differentiated thyroid carcinoma, and predict extrathyroidal extension
    BMC Cancer, 18 (1), 68
    DOI 10.1186/s12885-017-3948-3, PubMed 29321030
  2. Eilertsen IA, Sveen A, Strømme JM, Skotheim RI, Nesbakken A, Lothe RA (2018)
    Alternative splicing expands the prognostic impact of KRAS in microsatellite stable primary colorectal cancer
    Int J Cancer, 144 (4), 841-847
    DOI 10.1002/ijc.31809, PubMed 30121958
  3. Løvf M, Zhao S, Axcrona U, Johannessen B, Bakken AC, Carm KT, Hoff AM, Myklebost O, Meza-Zepeda LA, Lie AK, Axcrona K, Lothe RA, Skotheim RI (2018)
    Multifocal Primary Prostate Cancer Exhibits High Degree of Genomic Heterogeneity
    Eur Urol, 75 (3), 498-505
    DOI 10.1016/j.eururo.2018.08.009, PubMed 30181068
  4. Rajpert-De Meyts E, Skotheim RI (2018)
    Complex Polygenic Nature of Testicular Germ Cell Cancer Suggests Multifactorial Aetiology
    Eur Urol, 73 (6), 832-833
    DOI 10.1016/j.eururo.2018.02.023, PubMed 29530636
  5. Viswanathan SR, Ha G, Hoff AM, Wala JA, Carrot-Zhang J, Whelan CW, Haradhvala NJ, Freeman SS, Reed SC, Rhoades J, Polak P, Cipicchio M, Wankowicz SA, Wong A, Kamath T, Zhang Z, Gydush GJ, Rotem D, PCF/SU2C International Prostate Cancer Dream Team, Love JC, Getz G, Gabriel S, Zhang CZ, Dehm SM, Nelson PS et al. (2018)
    Structural Alterations Driving Castration-Resistant Prostate Cancer Revealed by Linked-Read Genome Sequencing
    Cell, 174 (2), 433-447.e19
    DOI 10.1016/j.cell.2018.05.036, PubMed 29909985

Publications 2017

  1. Berg KCG, Eide PW, Eilertsen IA, Johannessen B, Bruun J, Danielsen SA, Bjørnslett M, Meza-Zepeda LA, Eknæs M, Lind GE, Myklebost O, Skotheim RI, Sveen A, Lothe RA (2017)
    Multi-omics of 34 colorectal cancer cell lines - a resource for biomedical studies
    Mol Cancer, 16 (1), 116
    DOI 10.1186/s12943-017-0691-y, PubMed 28683746
  2. Lågstad S, Zhao S, Hoff AM, Johannessen B, Lingjærde OC, Skotheim RI (2017)
    chimeraviz: a tool for visualizing chimeric RNA
    Bioinformatics, 33 (18), 2954-2956
    DOI 10.1093/bioinformatics/btx329, PubMed 28525538
  3. Smebye ML, Agostini A, Johannessen B, Thorsen J, Davidson B, Tropé CG, Heim S, Skotheim RI, Micci F (2017)
    Involvement of DPP9 in gene fusions in serous ovarian carcinoma
    BMC Cancer, 17 (1), 642
    DOI 10.1186/s12885-017-3625-6, PubMed 28893231
  4. Sveen A, Johannessen B, Tengs T, Danielsen SA, Eilertsen IA, Lind GE, Berg KCG, Leithe E, Meza-Zepeda LA, Domingo E, Myklebost O, Kerr D, Tomlinson I, Nesbakken A, Skotheim RI, Lothe RA (2017)
    Multilevel genomics of colorectal cancers with microsatellite instability-clinical impact of JAK1 mutations and consensus molecular subtype 1
    Genome Med, 9 (1), 46
    DOI 10.1186/s13073-017-0434-0, PubMed 28539123
  5. Zhao S, Løvf M, Carm KT, Bakken AC, Hoff AM, Skotheim RI (2017)
    Novel transcription-induced fusion RNAs in prostate cancer
    Oncotarget, 8 (30), 49133-49143
    DOI 10.18632/oncotarget.17099, PubMed 28467780

Publications 2016

  1. Cekaite L, Eide PW, Lind GE, Skotheim RI, Lothe RA (2016)
    MicroRNAs as growth regulators, their function and biomarker status in colorectal cancer
    Oncotarget, 7 (6), 6476-505
    DOI 10.18632/oncotarget.6390, PubMed 26623728
  2. Lorenz S, Barøy T, Sun J, Nome T, Vodák D, Bryne JC, Håkelien AM, Fernandez-Cuesta L, Möhlendick B, Rieder H, Szuhai K, Zaikova O, Ahlquist TC, Thomassen GO, Skotheim RI, Lothe RA, Tarpey PS, Campbell P, Flanagan A, Myklebost O, Meza-Zepeda LA (2016)
    Unscrambling the genomic chaos of osteosarcoma reveals extensive transcript fusion, recurrent rearrangements and frequent novel TP53 aberrations
    Oncotarget, 7 (5), 5273-88
    DOI 10.18632/oncotarget.6567, PubMed 26672768
  3. Moen LV, Ramberg H, Zhao S, Grytli HH, Sveen A, Berge V, Skotheim RI, Taskén KA, Skålhegg BS (2016)
    Observed correlation between the expression levels of catalytic subunit, Cβ2, of cyclic adenosine monophosphate-dependent protein kinase and prostate cancer aggressiveness
    Urol Oncol, 35 (3), 111.e1-111.e8
    DOI 10.1016/j.urolonc.2016.10.002, PubMed 27838142
  4. Ramberg H, Grytli HH, Nygård S, Wang W, Ögren O, Zhao S, Løvf M, Katz B, Skotheim RI, Bjartell A, Eri LM, Berge V, Svindland A, Taskén KA (2016)
    PBX3 is a putative biomarker of aggressive prostate cancer
    Int J Cancer, 139 (8), 1810-20
    DOI 10.1002/ijc.30220, PubMed 27273830
  5. Smebye ML, Haugom L, Davidson B, Trope CG, Heim S, Skotheim RI, Micci F (2016)
    Bilateral ovarian carcinomas differ in the expression of metastasis-related genes
    Oncol Lett, 13 (1), 184-190
    DOI 10.3892/ol.2016.5384, PubMed 28123539

Publications 2015

  1. Brabrand S, Johannessen B, Axcrona U, Kraggerud SM, Berg KG, Bakken AC, Bruun J, Fosså SD, Lothe RA, Lehne G, Skotheim RI (2015)
    Exome sequencing of bilateral testicular germ cell tumors suggests independent development lineages
    Neoplasia, 17 (2), 167-74
    DOI 10.1016/j.neo.2014.12.005, PubMed 25748235
  2. Bruun J, Kolberg M, Ahlquist TC, Røyrvik EC, Nome T, Leithe E, Lind GE, Merok MA, Rognum TO, Bjørkøy G, Johansen T, Lindblom A, Sun XF, Svindland A, Liestøl K, Nesbakken A, Skotheim RI, Lothe RA (2015)
    Regulator of Chromosome Condensation 2 Identifies High-Risk Patients within Both Major Phenotypes of Colorectal Cancer
    Clin Cancer Res, 21 (16), 3759-70
    DOI 10.1158/1078-0432.CCR-14-3294, PubMed 25910952
  3. Hoff AM, Alagaratnam S, Zhao S, Bruun J, Andrews PW, Lothe RA, Skotheim RI (2015)
    Identification of Novel Fusion Genes in Testicular Germ Cell Tumors
    Cancer Res, 76 (1), 108-16
    DOI 10.1158/0008-5472.CAN-15-1790, PubMed 26659575
  4. Hoff AM, Johannessen B, Alagaratnam S, Zhao S, Nome T, Løvf M, Bakken AC, Hektoen M, Sveen A, Lothe RA, Skotheim RI (2015)
    Novel RNA variants in colorectal cancers
    Oncotarget, 6 (34), 36587-602
    DOI 10.18632/oncotarget.5500, PubMed 26474385
  5. Johannessen B, Sveen A, Skotheim RI (2015)
    TIN: An R Package for Transcriptome Instability Analysis
    Cancer Inform, 14, 109-12
    DOI 10.4137/CIN.S31363, PubMed 26448683
  6. Kolberg M, Høland M, Lind GE, Ågesen TH, Skotheim RI, Hall KS, Mandahl N, Smeland S, Mertens F, Davidson B, Lothe RA (2015)
    Protein expression of BIRC5, TK1, and TOP2A in malignant peripheral nerve sheath tumours--A prognostic test after surgical resection
    Mol Oncol, 9 (6), 1129-39
    DOI 10.1016/j.molonc.2015.02.005, PubMed 25769404
  7. Kumar S, Krabberød AK, Neumann RS, Michalickova K, Zhao S, Zhang X, Shalchian-Tabrizi K (2015)
    BIR Pipeline for Preparation of Phylogenomic Data
    Evol Bioinform Online, 11, 79-83
    DOI 10.4137/EBO.S10189, PubMed 25987827
  8. Mesquita D, Barros-Silva JD, Santos J, Skotheim RI, Lothe RA, Paulo P, Teixeira MR (2015)
    Specific and redundant activities of ETV1 and ETV4 in prostate cancer aggressiveness revealed by co-overexpression cellular contexts
    Oncotarget, 6 (7), 5217-36
    DOI 10.18632/oncotarget.2847, PubMed 25595908
  9. Munkley J, Oltean S, Vodák D, Wilson BT, Livermore KE, Zhou Y, Star E, Floros VI, Johannessen B, Knight B, McCullagh P, McGrath J, Crundwell M, Skotheim RI, Robson CN, Leung HY, Harries LW, Rajan P, Mills IG, Elliott DJ (2015)
    The androgen receptor controls expression of the cancer-associated sTn antigen and cell adhesion through induction of ST6GalNAc1 in prostate cancer
    Oncotarget, 6 (33), 34358-74
    DOI 10.18632/oncotarget.6024, PubMed 26452038
  10. Rounge TB, Furu K, Skotheim RI, Haugen TB, Grotmol T, Enerly E (2015)
    Profiling of the small RNA populations in human testicular germ cell tumors shows global loss of piRNAs
    Mol Cancer, 14, 153
    DOI 10.1186/s12943-015-0411-4, PubMed 26265322
  11. Sveen A, Kilpinen S, Ruusulehto A, Lothe RA, Skotheim RI (2015)
    Aberrant RNA splicing in cancer; expression changes and driver mutations of splicing factor genes
    Oncogene, 35 (19), 2413-27
    DOI 10.1038/onc.2015.318, PubMed 26300000

Publications 2014

  1. Løvf M, Nome T, Bruun J, Eknaes M, Bakken AC, Mpindi JP, Kilpinen S, Rognum TO, Nesbakken A, Kallioniemi O, Lothe RA, Skotheim RI (2014)
    A novel transcript, VNN1-AB, as a biomarker for colorectal cancer
    Int J Cancer, 135 (9), 2077-84
    DOI 10.1002/ijc.28855, PubMed 24687856
  2. Nome T, Hoff AM, Bakken AC, Rognum TO, Nesbakken A, Skotheim RI (2014)
    High frequency of fusion transcripts involving TCF7L2 in colorectal cancer: novel fusion partner and splice variants
    PLoS One, 9 (3), e91264
    DOI 10.1371/journal.pone.0091264, PubMed 24608966
  3. Sveen A, Johannessen B, Teixeira MR, Lothe RA, Skotheim RI (2014)
    Transcriptome instability as a molecular pan-cancer characteristic of carcinomas
    BMC Genomics, 15, 672
    DOI 10.1186/1471-2164-15-672, PubMed 25109687
  4. Vedeld HM, Skotheim RI, Lothe RA, Lind GE (2014)
    The recently suggested intestinal cancer stem cell marker DCLK1 is an epigenetic biomarker for colorectal cancer
    Epigenetics, 9 (3), 346-50
    DOI 10.4161/epi.27582, PubMed 24384857

Publications 2013

  1. Løvf M, Thomassen GO, Mertens F, Cerveira N, Teixeira MR, Lothe RA, Skotheim RI (2013)
    Assessment of fusion gene status in sarcomas using a custom made fusion gene microarray
    PLoS One, 8 (8), e70649
    DOI 10.1371/journal.pone.0070649, PubMed 23967081
  2. Nome T, Thomassen GO, Bruun J, Ahlquist T, Bakken AC, Hoff AM, Rognum T, Nesbakken A, Lorenz S, Sun J, Barros-Silva JD, Lind GE, Myklebost O, Teixeira MR, Meza-Zepeda LA, Lothe RA, Skotheim RI (2013)
    Common fusion transcripts identified in colorectal cancer cell lines by high-throughput RNA sequencing
    Transl Oncol, 6 (5), 546-53
    DOI 10.1593/tlo.13457, PubMed 24151535

Publications 2012

  1. Sveen A, Bakken AC, Ågesen TH, Lind GE, Nesbakken A, Nordgård O, Brackmann S, Rognum TO, Lothe RA, Skotheim RI (2012)
    The exon-level biomarker SLC39A14 has organ-confined cancer-specificity in colorectal cancer
    Int J Cancer, 131 (6), 1479-85
    DOI 10.1002/ijc.27399, PubMed 22173985
  2. Sveen A, Ågesen TH, Nesbakken A, Meling GI, Rognum TO, Liestøl K, Skotheim RI, Lothe RA (2012)
    ColoGuidePro: a prognostic 7-gene expression signature for stage III colorectal cancer patients
    Clin Cancer Res, 18 (21), 6001-10
    DOI 10.1158/1078-0432.CCR-11-3302, PubMed 22991413

Publications 2011

  1. Løvf M, Thomassen GO, Bakken AC, Celestino R, Fioretos T, Lind GE, Lothe RA, Skotheim RI (2011)
    Fusion gene microarray reveals cancer type-specificity among fusion genes
    Genes Chromosomes Cancer, 50 (5), 348-57
    DOI 10.1002/gcc.20860, PubMed 21305644
  2. Sveen A, Agesen TH, Nesbakken A, Rognum TO, Lothe RA, Skotheim RI (2011)
    Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels and patient survival
    Genome Med, 3 (5), 32
    DOI 10.1186/gm248, PubMed 21619627

Publications 2009

  1. Skotheim RI, Thomassen GO, Eken M, Lind GE, Micci F, Ribeiro FR, Cerveira N, Teixeira MR, Heim S, Rognes T, Lothe RA (2009)
    A universal assay for detection of oncogenic fusion transcripts by oligo microarray analysis
    Mol Cancer, 8, 5
    DOI 10.1186/1476-4598-8-5, PubMed 19152679

Publications 2007

  1. Skotheim RI, Nees M (2007)
    Alternative splicing in cancer: noise, functional, or systematic?
    Int J Biochem Cell Biol, 39 (7-8), 1432-49
    DOI 10.1016/j.biocel.2007.02.016, PubMed 17416541

Publications 2006

  1. Skotheim RI, Autio R, Lind GE, Kraggerud SM, Andrews PW, Monni O, Kallioniemi O, Lothe RA (2006)
    Novel genomic aberrations in testicular germ cell tumors by array-CGH, and associated gene expression changes
    Cell Oncol, 28 (5-6), 315-26
    DOI 10.1155/2006/219786, PubMed 17167184
  2. von Eyben FE, Jacobsen GK, Skotheim RI, von der Maase H, Rorth M (2006)
    Precursor lesions in testis and dysgenetic gonads
    Hum Pathol, 37 (6), 773; author reply 774
    DOI 10.1016/j.humpath.2006.01.006, PubMed 16733221
 
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