Browsing Det matematisk-naturvitenskapelige fakultet by Author "Hovig, Eivind"

Now showing items 1-20 of 29

  • A Breast Cancer Polygenic Risk Score Is Feasible for Risk Stratification in the Norwegian Population 
    Akdeniz, Bayram Cevdet; Mattingsdal, Morten; Dominguez-Valentin, Mev; Frei, Oleksandr; Shadrin, Alexey; Puustusmaa, Mikk; Saar, Regina; Sõber, Siim; Møller, Pål; Andreassen, Ole; Padrik, Peeter; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2023)
    Background: Statistical associations of numerous single nucleotide polymorphisms with breast cancer (BC) have been identified in genome-wide association studies (GWAS). Recent evidence suggests that a Polygenic Risk Score ...
  • A comprehensive framework for analysis of microRNA sequencing data in metastatic colorectal cancer 
    Høye, Eirik; Fromm, Bastian; Böttger, Paul H.M.; Domanska, Diana; Kristensen, Annette Torgunrud; Lund-Andersen, Christin; Abrahamsen, Torveig Weum; Fretland, Åsmund Avdem; Dagenborg, Vegar Johansen; Lorenz, Susanne; Edwin, Bjørn von Gohren; Hovig, Eivind; Flatmark, Kjersti (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    ABSTRACT Although microRNAs (miRNAs) contribute to all hallmarks of cancer, miRNA dysregulation in metastasis remains poorly understood. The aim of this work was to reliably identify miRNAs associated with ...
  • Accuracy and efficiency of germline variant calling pipelines for human genome data 
    Zhao, Sen; Agafonov, Oleg; Azab, Abdulrahman; Stokowy, Tomasz; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2020)
    Abstract Advances in next-generation sequencing technology have enabled whole genome sequencing (WGS) to be widely used for identification of causal variants in a spectrum of genetic-related disorders, and provided new ...
  • Cancer Predisposition Sequencing Reporter (CPSR): A flexible variant report engine for high-throughput germline screening in cancer 
    Nakken, Sigve; Saveliev, Vladislav; Hofmann, Oliver; Møller, Pål; Myklebost, Ola; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2021)
    The value of high-throughput germline genetic testing is increasingly recognized inclinical cancer care. Disease-associated germline variants in cancer patients areimportant for risk management and surveillance, surgical ...
  • Clonal evolution after treatment pressure in multiple myeloma: heterogenous genomic aberrations and transcriptomic convergence 
    Misund, Kristine; Hofste op Bruinink, Davine; Coward, Eivind; Hoogenboezem, Remco M.; Rustad, Even Holth; Sanders, Mathijs A.; Rye, Morten Beck; Sponaas, Anne-Marit; van der Holt, Bronno; Zweegman, Sonja; Hovig, Eivind; Meza, Leonardo Zepeda; Sundan, Anders; Myklebost, Ola; Sonneveld, Pieter; Waage, Anders (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    Abstract We investigated genomic and transcriptomic changes in paired tumor samples of 29 in-house multiple myeloma (MM) patients and 28 patients from the MMRF CoMMpass study before and after treatment. A change in clonal ...
  • Combining a universal telomerase based cancer vaccine with ipilimumab in patients with metastatic melanoma - Five-year follow up of a phase I/IIa trial 
    Aamdal, Elin; Inderberg, Else Marit; Ellingsen, Espen Basmo; Rasch, Wenche; Brunsvig, Paal Fr.; Aamdal, Steinar; Heintz, Karen Marie; Vodák, Daniel; Nakken, Sigve; Hovig, Eivind; Nyakas, Marta Sølvi; Guren, Tormod Kyrre; Gaudernack, Gustav (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2021)
    Background Ipilimumab improves survival for patients with metastatic malignant melanoma. Combining a therapeutic cancer vaccine with ipilimumab may increase efficacy by providing enhanced anti-tumor immune responses. UV1 ...
  • Comprehensive interrogation of gene lists from genome-scale cancer screens with oncoEnrichR 
    Nakken, Sigve; Gundersen, Sveinung; Bernal, Fabian Leonardo Martinez; Polychronopoulos, Dimitris; Hovig, Eivind; Wesche, Jørgen (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2023)
    Genome-scale screening experiments in cancer produce long lists of candidate genes that require extensive interpretation for biological insight and prioritization for follow-up studies. Interrogation of gene lists frequently ...
  • Durable and dynamic hTERT immune responses following vaccination with the long-peptide cancer vaccine UV1: Long-Term follow-up of three phase i clinical trials 
    Ellingsen, Espen Basmo; Aamdal, Elin; Guren, Tormod Kyrre; Lilleby, Wolfgang; Brunsvig, Paal Fr.; Mangsbo, Sara M; Aamdal, Steinar; Hovig, Eivind; Mensali, Nadia; Gaudernack, Gustav; Inderberg, Else Marit (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    Background Therapeutic cancer vaccines represent a promising approach to improve clinical outcomes with immune checkpoint inhibition. UV1 is a second generation telomerase-targeting therapeutic cancer vaccine being ...
  • Dysregulation of MITF Leads to Transformation in MC1R-Defective Melanocytes 
    Lavelle, Timothy J; Alver, Tine Norman; Heintz, Karen Marie; Wernhoff, Patrik; Nygaard, Vegard; Nakken, Sigve; Øy, Geir Frode; Bøe, Sigurd; Urbanucci, Alfonso; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2020)
    The MC1R/cAMP/MITF pathway is a key determinant for growth, differentiation, and survival of melanocytes and melanoma. MITF-M is the melanocyte-specific isoform of Microphthalmia-associated Transcription Factor (MITF) in ...
  • Functional precision cancer medicine: drug sensitivity screening enabled by cell culture models 
    Flobak, Åsmund; Skånland, Sigrid S; Hovig, Eivind; Tasken, Kjetil; Russnes, Hege Elisabeth Giercksky (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2022)
    Functional precision medicine is a new, emerging area that can guide cancer treatment by capturing information from direct perturbations of tumor-derived, living cells, such as by drug sensitivity screening. Precision ...
  • Genetic Characterization in High-Risk Individuals from a Low-Resource City of Peru 
    Zavaleta, Elizabeth; Solis, Nelly; Palacios, Maria Isabel; Zevallos-Escobar, Liz Elva; Corales, Edison Vasquez; Bazo-Alvarez, Juan Carlos; Dominguez-Barrera, Constantino; Campos, Anthony; Wernhoff, Patrik; Ekstrøm, Per Olaf; Møller, Pål; Visnovska, Martina; Hovig, Eivind; Balazar-Palacios, Janina; Alvarez-Valenzuela, Karin; Nakken, Sigve; Dominguez-Valentin, Mev (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    Background: Genetic testing for hereditary cancers is inconsistently applied within the healthcare systems in Latin America. In Peru, the prevalence and spectrum of cancer-predisposing germline variants is thus poorly ...
  • hGSuite HyperBrowser: A web-based toolkit for hierarchical metadata-informed analysis of genomic tracks 
    Kalyanasundaram, Sumana; Lefol, Yohan Pierre; Gundersen, Sveinung; Rognes, Torbjørn; Alsøe, Lene; Nilsen, Hilde; Hovig, Eivind; Sandve, Geir Kjetil Ferkingstad; Domanska, Diana (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2023)
    Many high-throughput sequencing datasets can be represented as objects with coordinates along a reference genome. Currently, biological investigations often involve a large number of such datasets, for example representing ...
  • Integrative genomic analysis of peritoneal malignant mesothelioma: Understanding a case with extraordinary chemotherapy response 
    Lund-Andersen, Christin; Nakken, Sigve; Nygård, Ståle; Fromm, Bastian; Aasheim, Lars Birger; Davidson, Ben; Julsrud, Lars; Abrahamsen, Torveig Weum; Kristensen, Annette Torgunrud; Dybdahl, Brit; Larsen, Stein Gunnar; Hovig, Eivind; Flatmark, Kjersti (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2019)
    Peritoneal malignant mesothelioma is a rare disease with a generally poor prognosis and poor response to chemotherapy. To improve survival there is a need for increased molecular understanding of the disease, including ...
  • JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles 
    Rauluseviciute, Ieva; Riudavets-Puig, Rafael; Blanc-Mathieu, Romain; Castro-Mondragon, Jaime Abraham; Ferenc, Katalin Terezia; Kumar, Vipin; Lemma, Roza Berhanu; Lucas, Jeremy; Cheneby, Jeanne; Baranasic, Damir; Khan, Aziz; Fornes, Oriol; Gundersen, Sveinung; Johansen, Morten; Hovig, Eivind; Lenhard, Boris; Sandelin, Albin; Wasserman, Wyeth W.; Parcy, François; Mathelier, Anthony (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2023)
    JASPAR (https://jaspar.elixir.no/) is a widely-used open-access database presenting manually curated high-quality and non-redundant DNA-binding profiles for transcription factors (TFs) across taxa. In this 10th release and ...
  • MirGeneDB 2.0: the metazoan microRNA complement 
    Fromm, Bastian; Domanska, Diana Ewa; Høye, Eirik; Ovchinnikov, Vladimir; Kang, Wenjing; Aparicio-Puerta, Ernesto; Johansen, Morten; Flatmark, Kjersti; Mathelier, Anthony; Hovig, Eivind; Hackenberg, Michael; Friedländer, Marc R.; Peterson, Kevin J. (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2019)
    Small non-coding RNAs have gained substantial attention due to their roles in animal development and human disorders. Among them, microRNAs are special because individual gene sequences are conserved across the animal ...
  • MirGeneDB 2.1: toward a complete sampling of all major animal phyla 
    Fromm, Bastian; Høye, Eirik; Domanska, Diana; Zhong, Xiangfu; Aparicio-Puerta, Ernesto; Ovchinnikov, Vladimir; Umu, Sinan Ugur; Chabot, Peter J; Kang, Wenjing; Aslanzadeh, Morteza; Marmol-Sanchez, Emilio; Urgese, Gianvito; Johansen, Morten; Hovig, Eivind; Hackenberg, Michael; Friedländer, Marc R.; Peterson, Kevin (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    Abstract We describe an update of MirGeneDB, the manually curated microRNA gene database. Adhering to uniform and consistent criteria for microRNA annotation and nomenclature, we substantially expanded MirGeneDB ...
  • Molecularly matched therapy in the context of sensitivity, resistance, and safety; patient outcomes in end-stage cancer?the MetAction study 
    Ree, Anne Hansen; Nygaard, Vigdis; Pedersen, Kjetil Boye; Heinrich, Daniel; Dueland, Svein; Bergheim, Inger Riise; Johansen, Christin; Beiske, Klaus; Negård, Anne; Lund-Iversen, Marius; Nygaard, Vegard; Hovig, Eivind; Nakken, Sigve; Nasser, Salah; Julsrud, Lars; Reisse, Claudius; Ruud, Espen Asak; Kristensen, Vessela N.; Flørenes, Vivi Ann; Geitvik, Gry; Lingjærde, Ole Christian; Børresen-Dale, Anne-Lise; Russnes, Hege Elisabeth Giercksky; Mælandsmo, Gunhild Mari; Flatmark, Kjersti (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2020)
    Background: In precision cancer medicine, the challenge is to prioritize DNA driver events, account for resistance markers, and procure sufficient information for treatment that maintains patient safety. The MetAction ...
  • Mutational analysis and protein profiling predict drug sensitivity in multiple myeloma cell lines 
    Giliberto, Mariaserena; Miranda Santana, Leonardo; Holien, Toril; Misund, Kristine; Nakken, Sigve; Vodak, Daniel; Hovig, Eivind; Meza, Leonardo Zepeda; Coward, Eivind; Waage, Anders; Tasken, Kjetil; Skånland, Sigrid S (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2022)
    Introduction Multiple myeloma (MM) is a heterogeneous disease where cancer-driver mutations and aberrant signaling may lead to disease progression and drug resistance. Drug responses vary greatly, and there is an unmet ...
  • No difference in penetrance between truncating and missense/aberrant splicing pathogenic variants in mlh1 and msh2: A prospective lynch syndrome database study 
    Dominguez-Valentin, Mev; Plazzer, John-Paul; Sampson, Julian R.; Engel, Christoph; Aretz, Stefan; Jenkins, Mark A.; Sunde, Lone; Bernstein, Inge; Capella, Gabriel; Balaguer, Francesc; Macrae, Finlay; Winship, Ingrid M.; Thomas, Huw; Evans, Dafydd Gareth; Burn, John; Greenblatt, Marc; de Vos tot Nederveen Cappel, Wouter H.; Sijmons, Rolf H.; Nielsen, Maartje; Bertario, Lucio; Bonanni, Bernardo; Tibiletti, Maria Grazia; Cavestro, Giulia Martina; Lindblom, Annika; Della Valle, Adriana; Lopez-Kostner, Francisco; Alvarez, Karin; Gluck, Nathan; Katz, Lior; Heinimann, Karl; Vaccaro, Carlos Alberto; Nakken, Sigve; Hovig, Eivind; Green, Kate; Lalloo, Fiona; Hill, James; Vasen, Hans F. A.; Perne, Claudia; Büttner, Reinhard; Görgens, Heike; Holinski-Feder, Elke; Morak, Monika; Holzapfel, Stefanie; Hüneburg, Robert; Doeberitz, Magnus von Knebel; Loeffler, Markus; Rahner, Nils; Weitz, Jürgen; Steinke-Lange, Verena; Schmiegel, Wolff; Vangala, Deepak; Crosbie, Emma J.; Pineda, Marta; Navarro, Matilde; Brunet, Joan; Moreira, Leticia; Sánchez, Ariadna; Serra-Burriel, Miquel; Mints, Miriam; Kariv, Revital; Rosner, Guy; Piñero, Tamara A.; Pavicic, Walter Hernán; Kalfayan, Pablo; Ten Broeke, Sanne W.; Mecklin, Jukka-Pekka; Pylvänäinen, Kirsi; Renkonen-Sinisalo, Laura; Lepistö, Anna; Peltomäki, Päivi; Hopper, John L.; Win, Aung Ko; Buchanan, Daniel D.; Lindor, Noralane M.; Gallinger, Steven; Le Marchand, Loic; Newcomb, Polly A.; Figueiredo, Jane C.; Thibodeau, Stephen N.; Therkildsen, Christina; Hansen, Thomas V.O.; Lindberg, Lars; Rødland, Einar Andreas; Neffa, Florencia; Esperon, Patricia; Tjandra, Douglas; Möslein, Gabriela; Seppälä, Toni T.; Møller, Pål (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2021)
    Background. Lynch syndrome is the most common genetic predisposition for hereditary cancer. Carriers of pathogenic changes in mismatch repair (MMR) genes have an increased risk of developing colorectal (CRC), endometrial, ...
  • PathTracer: High-sensitivity detection of differential pathway activity in tumours 
    Nygård, Ståle; Lingjærde, Ole Christian; Caldas, Carlos; Hovig, Eivind; Børresen-Dale, Anne-Lise; Helland, Åslaug; Haakensen, Vilde Drageset (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2019)
    Gene expression profiling of tumours is an important source of information for cancer patient stratification. Detecting subtle alterations of gene expression remains a challenge, however. Here, we propose a novel tool for ...