Browsing NTNU Open by Author "Flobak, Åsmund"

Now showing items 1-20 of 27

    • A high-throughput drug combination screen of targeted small molecule inhibitors in cancer cell lines 

      Flobak, Åsmund; Niederdorfer, Barbara; To, Vu; Thommesen, Liv; Klinkenberg, Geir; Lægreid, Astrid (Journal article; Peer reviewed, 2019)
      While there is a high interest in drug combinations in cancer therapy, openly accessible datasets for drug combination responses are sparse. Here we present a dataset comprising 171 pairwise combinations of 19 individual ...

    • Automation of Drug Target Profiling for Logical Modelling 

      Kristine Lippestad (Master thesis, 2023)
      Kreft er en heterogen sykdomsgruppe som utgjør en betydelig global helseutfordring. I dag legges det inn store ressurser for å oppnå kreftkontroll. Betydelig framgang innen kreftforskning har resultert i flere nye og lovende ...

    • Characterisation of Colorectal Cancer Cell Lines through Proteomic Profiling of Their Extracellular Vesicles 

      Heck, Kathleen; Lindholm, Håvard Takle; Niederdorfer, Barbara; Tsirvouli, Eirini; Kuiper, Martin; Flobak, Åsmund; Lægreid, Astrid Renner; Thommesen, Liv (Journal article; Peer reviewed, 2023)

    • CImbinator: a web-based tool for drug synergy analysis in small- and large-scale datasets 

      Flobak, Åsmund; Vázquez, Miguel; Lægreid, Astrid; Valencia, Alfonso (Journal article; Peer reviewed, 2017)
      Motivation: Drug synergies are sought to identify combinations of drugs particularly beneficial. User-friendly software solutions that can assist analysis of large-scale datasets are required. Results: CImbinator is a ...

    • Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen 

      Kuiper, Martin; Lægreid, Astrid; Flobak, Åsmund; Thommesen, Liv; Team, Dream (Journal article; Peer reviewed, 2019)
      The effectiveness of most cancer targeted therapies is short-lived. Tumors often developresistance that might be overcome with drug combinations. However, the number of possiblecombinations is vast, necessitating data-driven ...

    • Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling 

      Flobak, Åsmund; Baudot, Anaïs; Remy, Elisabeth; Thommesen, Liv; Thieffry, Denis; Kuiper, Martin; Lægreid, Astrid (Peer reviewed; Journal article, 2015)
      Discovery of efficient anti-cancer drug combinations is a major challenge, since experimental testing of all possible combinations is clearly impossible. Recent efforts to computationally predict drug combination responses ...

    • Dynamic Boolean modeling of molecular and cellular interactions in psoriasis predicts drug target candidates 

      Tsirvouli, Eirini; Noël, Vincent; Flobak, Åsmund; Calzone, Laurence; Kuiper, Martin (Journal article; Peer reviewed, 2024)
      Psoriasis arises from complex interactions between keratinocytes and immune cells, leading to uncontrolled inflammation, immune hyperactivation, and a perturbed keratinocyte life cycle. Despite the availability of drugs ...

    • Effect of Calibration Data Subsetting on Boolean Model Calibration and Drug Synergy Predictions 

      Hettasch, Thea Johanna Aandstad (Master thesis, 2023)
      Kreft er et samlebegrep for en rekke sykdomstilstander som kjennetegnes av unormal og ukontrollert celledeling, og forårsakes av avvikende regulering av ulike cellulære signalveier knyttet til cellevekst og celledød. Med ...

    • emba: R package for analysis and visualization of biomarkers in boolean model ensembles 

      Zobolas, John; Kuiper, Martin; Flobak, Åsmund (Journal article; Peer reviewed, 2020)

    • Experimental-Computational Approaches to Identify Synergistic Effects of Anti-Cancer Drugs 

      Niederdorfer, Barbara (Doctoral theses at NTNU;2019:384, Doctoral thesis, 2019)
      Drug combinations are hoped to improve treatment response to anti-cancer drugs by targeting the cancers vulnerabilities at diverse trajectories. With a large number of approved agents of chemotherapeutic and targeted ...

    • 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 (Peer reviewed; Journal article, 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 ...

    • Hever kvaliteten på behandling av kreft 

      Helland, Åslaug; Steinskog, Eli Sihn Samdal; Blix, Egil St⊘re; Flobak, Åsmund; Brabrand, Sigmund; Puco, Katarina; Niehusmann, Pitt; Meltzer, Sebastian; Oppedal, Irja Alida; Haug, Åse; Blix, Egil Støre; Torkildsen, Cecilie Fredvik; Randen, Ulla; Gilje, Bj⊘rnar; Gilje, Bjørnar; L⊘nning, Per Eystein; Lønning, Per Eystein; Gjertsen, Bjørn Tore; Hovland, Randi; Russnes, Hege Elisabeth Giercksky; Fagereng, Gro Live; Smeland, Sigbjørn; Tasken, Kjetil (Journal article; Peer reviewed, 2024)

    • High-throughput screening reveals higher synergistic effect of MEK inhibitor combinations in colon cancer spheroids 

      Folkesson, Evelina; Niederdorfer, Barbara; To, Vu; Thommesen, Liv; Klinkenberg, Geir; Lægreid, Astrid; Flobak, Åsmund (Peer reviewed; Journal article, 2020)
      Drug combinations have been proposed to combat drug resistance, but putative treatments are challenged by low bench-to-bed translational efficiency. To explore the effect of cell culture format and readout methods on ...

    • Improving public cancer care by implementing precision medicine in Norway: IMPRESS-Norway 

      Helland, Åslaug; Russnes, Hege Elisabeth Giercksky; Fagereng, Gro Live; Al-Shibli, Khalid Ibrahim; Andersson, Yvonne; Berg, Thomas; Bjørge, Line; Blix, Egil Støre; Bjerkehagen, Bodil; Brabrand, Sigmund; CAMERON, MARTE; Dalhaug, Astrid; Dietzel, Dalia; Dønnem, Tom; Enerly, Espen; Flobak, Åsmund; Fluge, Sverre; Gilje, Bjørnar; Gjertsen, Bjørn Tore; Grønberg, Bjørn Henning; Grønås, Kari; Guren, Tormod Kyrre; Hamre, Hanne Mari; Haug, Åse; Heinrich, Daniel; Hjortland, Geir Olav; Hovig, Eivind; Hovland, Randi; Iversen, Ann-Charlotte; Janssen, Emiel; Kyte, Jon A; Gythfeldt, Hedda; Lothe, Ragnhild Adelheid; Lund, Jo-Åsmund; Meza, Leonardo Zepeda; Munthe-Kaas, Monica Cheng; Nguyen, Olav Toai Duc; Niehusmann, Pitt; Nilsen, Hilde; Puco, Katarina; Ree, Anne Hansen; Riste, Tonje Bøyum; Semb, Karin; Steinskog, Eli Sihn Samdal; Stensvold, Andreas; Suhrke, Pål; Tennøe, Øyvind Krohn; Tjønnfjord, Geir Erland; Vassbotn, Liv Jorunn; Aas, Eline; Aasebø, Kristine Øverås; Tasken, Kjetil; Smeland, Sigbjørn (Peer reviewed; Journal article, 2022)
      Background Matching treatment based on tumour molecular characteristics has revolutionized the treatment of some cancers and has given hope to many patients. Although personalized cancer care is an old concept, renewed ...

    • Improving the FAIRness of causal interactions in systems biology 

      Touré, Vasundra (Doctoral theses at NTNU;2020:293, Doctoral thesis, 2020)
      In molecular systems biology, regulatory process models are built and computationally simulated to represent and analyse the behaviour of cellular systems and how they respond to perturbations. A considerable amount of ...

    • Investigation of Transfection Using Silica-coated Cupric Oxide Nanowires 

      Flobak, Åsmund (Master thesis, 2013)
      One-dimensional high aspect ratio nanostructures grown from a copper foil are considered for intracellular delivery of bioactive molecules, such as drugs and genetic material. The cupric oxide (CuO) nanowires are coated ...

    • A middle-out modeling strategy to extend a colon cancer logical model improves drug synergy predictions in epithelial-derived cancer cell lines 

      Tsirvouli, Eirini; Touré, Vasundra; Niederdorfer, Barbara; Vazquez Garcia, Miguel; Flobak, Åsmund; Kuiper, Martin (Peer reviewed; Journal article, 2020)
      Cancer is a heterogeneous and complex disease and one of the leading causes of death worldwide. The high tumor heterogeneity between individuals affected by the same cancer type is accompanied by distinct molecular and ...

    • The Minimum Information about a Molecular Interaction Causal Statement (MI2CAST) 

      Touré, Vasundra; Vercruysse, Steven; Acencio, Marcio Luis; Lovering, Ruth C.; Orchard, Sandra; Bradley, Glyn; Casals-Casas, Cristina; Chaouiya, Claudine; del-Toro, Noemi; Flobak, Åsmund; Gaudet, Pascale; Hermjakob, Henning; Hoyt, Charles Tapley; Licata, Luana; Lægreid, Astrid; Mungall, Christopher; Niknejad, Anne; Panni, Simona; Perfetto, Livia; Porras, Pablo; Pratt, Dexter; Saez-Rodriguez, Julio; Thieffry, Denis; Thomas, Paul; Türei, Dénes; Kuiper, Martin (Peer reviewed; Journal article, 2020)
      Motivation A large variety of molecular interactions occurs between biomolecular components in cells. When a molecular interaction results in a regulatory effect, exerted by one component onto a downstream component, a ...

    • Network and Systems Medicine: Position Paper of the European Collaboration on Science and Technology Action on Open Multiscale Systems Medicine 

      Comte, Blandine; Baumbach, Jan; Benis, Arriel; Basílio, José; Debeljak, Nataša; Flobak, Åsmund; Franken, Christian; Harel, Nissim; He, Feng; Kuiper, Martin; Juan Albino Méndez, Pérez; Pujos-Guillot, Estelle; Režen, Tadeja; Rozman, Damjana; Schmid, Johannes A; Scerri, Jeanesse; Tieri, Paolo; Van Steen, Kristel; Sona, Vasudevan; Watterson, Steven; Schmidt, Harald H H W (Journal article; Peer reviewed, 2020)
      Introduction: Network and systems medicine has rapidly evolved over the past decade, thanks to computational and integrative tools, which stem in part from systems biology. However, major challenges and hurdles are still ...

    • Signaling Pathway Modules: network organization elements for understanding cancer and designing therapies. 

      Tsirvouli, Eirini (Master thesis, 2019)
      Cancer is a heterogeneous, complex disease and one of the leading causes of death worldwide. The high heterogeneity between individuals, even those affected by the same cancer type, can lead to distinct molecular and ...