Browsing NTNU Open by Author "Flatberg, Arnar"
Now showing items 1-20 of 28
-
A framework for significance analysis of gene expression data using dimension reduction methods
Gidskehaug, Lars; Anderssen, Endre; Flatberg, Arnar; Alsberg, Bjørn Kåre (Journal article; Peer reviewed, 2007)Background: The most popular methods for significance analysis on microarray data are well suited to find genes differentially expressed across predefined categories. However, identification of features that correlate ... -
Acute and potentially persistent effects of scuba diving on the blood transcriptome of experienced divers
Eftedal, Ingrid; Ljubkovic, Marko; Flatberg, Arnar; Jørgensen, Arve; Brubakk, Alf O; Dujic, Zeljko (Journal article; Peer reviewed, 2013)During scuba diving, the circulatory system is stressed by an elevated partial pressure of oxygen while the diver is submerged and by decompression-induced gas bubbles on ascent to the surface. This diving-induced stress ... -
Analysis of Intra-Tumoral Macrophages and T Cells in Non-Small Cell Lung Cancer (NSCLC) Indicates a Role for Immune Checkpoint and CD200-CD200R Interactions
Tøndell, Anders; Subbannayya, Yashwanth; Wahl, Sissel Gyrid Freim; Flatberg, Arnar; Sørhaug, Sveinung; Børset, Magne; Haug, Markus (Peer reviewed; Journal article, 2021)Lung cancer is the leading cause of cancer-related death worldwide, accounting for nearly one-fifth of all cancer-related deaths. Immunotherapy with immune checkpoint inhibitors has become one of the most promising approaches ... -
Assessing the role of genome-wide DNA methylation between smoking and risk of lung cancer using repeated measurements: the HUNT Study
Sun, Yi-Qian; Richmond, Rebecca C.; Suderman, Matthew; Min, Josine L; Battram, Thomas; Flatberg, Arnar; Beisvag, Vidar; Nøst, Therese Haugdahl; Guida, Florence; Jiang, Lin; Wahl, Sissel Gyrid Freim; Langhammer, Arnulf; Skorpen, Frank; Walker, Rosie M; Bretherick, Andrew D; Zeng, Yanni; Chen, Yue; Johansson, Mattias; Sandanger, Torkjel M; Relton, Caroline L; Mai, Xiao-Mei (Peer reviewed; Journal article, 2021)Background: It is unclear if smoking-related DNA methylation represents a causal pathway between smoking and risk of lung cancer. We sought to identify novel smoking-related DNA methylation sites in blood, with repeated ... -
Blood gene expression and vascular function biomarkers in professional saturation diving
Kiboub, Fatima Zohra; Møllerløkken, Andreas; Hjelde, Astrid; Flatberg, Arnar; Loennechen, Øyvind; Eftedal, Ingrid (Journal article; Peer reviewed, 2018)Saturation diving is an established way to conduct subsea operations with human intervention. While working, the divers must acclimatize to the hyperbaric environments. In this study, genome-wide gene expression and selected ... -
Expanding the utilization of formalin-fixed, paraffin-embedded archives: Feasibility of miR-Seq for disease exploration and biomarker development from biopsies with clear cell renal cell Carcinoma
Strauss, Philipp; Marti, Hans-Peter; Beisland, Christian; Scherer, Andreas; Lysne, Vegard; Leh, Sabine Maria; Flatberg, Arnar; Koch, Even Evjen; Beisvag, Vidar; Landolt, Lea Zoe; Skogstrand, Trude; Eikrem, Øystein Solberg (Journal article; Peer reviewed, 2018)Novel predictive tools for clear cell renal cell carcinoma (ccRCC) are urgently needed. MicroRNAs (miRNAs) have been increasingly investigated for their predictive value, and formalin-fixed paraffin-embedded biopsy archives ... -
Expression of Toll-like receptor-3 is enhanced in active inflammatory bowel disease and mediates the excessive release of lipocalin 2
Østvik, Ann Elisabet; Granlund, Atle Van Beelen; Torp, Sverre Helge; Flatberg, Arnar; Beisvag, Vidar; Waldum, Helge; Flo, Trude Helen; Espevik, Terje; Damås, Jan Kristian; Sandvik, Arne Kristian (Journal article; Peer reviewed, 2013)Anti-microbial peptides might influence the pathogenesis and course of inflammatory bowel disease (IBD). We sought to clarify the role of the anti-microbial glycoprotein lipocalin 2 (LCN2) in the colon by determining its ... -
Fine needle aspirates of kidneys: A promising tool for RNA sequencing in native and transplanted kidneys
Eikrem, Øystein Solberg; Walther, Tedd Christian; Flatberg, Arnar; Beisvag, Vidar; Strauss, Philipp; Farstad, Magnus; Beisland, Christian; Koch, Even; Mueller, Thomas F.; Marti, Hans-Peter (Journal article; Peer reviewed, 2018)Background Transcriptome analysis is emerging as emerging as a promising tool to enhance precision of diagnosis and monitoring in solid organ transplantation. Clinical progress has however been hampered by the current ... -
Gastric Corpus Mucosal Hyperplasia and Neuroendocrine Cell Hyperplasia, but not Spasmolytic Polypeptide-Expressing Metaplasia, Is Prevented by a Gastrin Receptor Antagonist in H+/K+ATPase Beta Subunit Knockout Mice
Aasarød, Kristin Matre; Waldum, Helge; Stunes, Astrid Kamilla; Sandvik, Arne Kristian; Flatberg, Arnar; Mjønes, Patricia; Syversen, Unni; Bakke, Ingunn; Fossmark, Reidar (Journal article; Peer reviewed, 2020)Proton pump inhibitor use is associated with an increased risk of gastric cancer, which may be mediated by hypergastrinemia. Spasmolytic polypeptide-expression metaplasia (SPEM) has been proposed as a precursor of gastric ... -
Genome-wide analysis of the oxyntic proliferative isthmus zone reveals ASPM as a possible gastric stem/progenitor cell marker overexpressed in cancer.
Vange, Pål; Bruland, Torunn; Beisvag, Vidar; Erlandsen, Sten Even; Flatberg, Arnar; Doseth, Berit; Sandvik, Arne Kristian; Bakke, Ingunn (Journal article; Peer reviewed, 2015)The oxyntic proliferative isthmus zone contains the main stem/progenitor cells that provide for physiological renewal of the distinct mature cell lineages in the oxyntic epithelium of the stomach. These cells are also ... -
Immune and inflammatory responses to freediving calculated from leukocyte gene expression profiles
Eftedal, Ingrid; Flatberg, Arnar; Drvis, Ivan; Dujic, Zeljko (Journal article; Peer reviewed, 2016)Freedivers hold their breath while diving, causing blood oxygen levels to decrease (hypoxia) while carbon dioxide increases (hypercapnia). Whereas blood gas changes are presumably involved in the progression of respiratory ... -
Intracellular growth of Mycobacterium avium subspecies and global transcriptional responses in human macrophages after infection
Agdestein, Angelika; Jones, A; Flatberg, Arnar; Johansen, Tone Kristin Bjordal; Heffernan, Inger Austrheim; Djønne, Berit K; Bosco, A; Olsen, Ingrid (Journal article; Peer reviewed, 2014)Background Mycobacterium avium subsp. avium (Maa) and M. avium subsp. hominissuis (Mah) are environmental mycobacteria and significant opportunistic pathogens. Mycobacterium avium infections in humans and pigs are mainly ... -
Modelling Cell Cycle Phase Distribution in Cell Cultures
(Master thesis, 2019)Vi benytter oss av enkeltcelle RNA genekspresjonsdata for å studere cellesyklusen. To metoder for enkeltcelle RNA genekspresjonskvantifisering sammenlignes. Vi analyserer både tellematrisene og ytelsen på begge metodene. ... -
Molecular Resistance Fingerprint of Pemetrexed and Platinum in a Long-Term Survivor of Mesothelioma
Røe, Oluf Dimitri; Szulkin, Adam; Anderssen, Endre; Flatberg, Arnar; Sandeck, Helmut; Amundsen, Tore; Erlandsen, Sten Even; Dobra, Katalin; Sundstrøm, Stein Harald (Journal article; Peer reviewed, 2012) -
Mucosal 5-aminosalicylic acid concentration, drug formulation and mucosal microbiome in patients with quiescent ulcerative colitis
Olaisen, Maya; Spigset, Olav; Flatberg, Arnar; Granlund, Atle van Beelen; Brede, wenche Rødseth; Albrektsen, Grethe; Røyset, Elin Synnøve; Gilde, Bodil; Sandvik, Arne Kristian; Martinsen, Tom Christian; Fossmark, Reidar (Journal article; Peer reviewed, 2019)Background 5‐aminosalicylic acid (5‐ASA) is the first‐line therapy for ulcerative colitis (UC). 5‐ASA acts locally in the colonic mucosa by numerous proposed mechanisms, and is metabolised by N‐acetyltransferase (NAT). ... -
A multiomics disease progression signature of low-risk ccRCC
Strauss, Philipp; Rivedal, Mariell; Scherer, Andreas; Eikrem, Øystein Solberg; Nakken, Sigrid; Beisland, Christian; Bostad, Leif; Flatberg, Arnar; Skandalou, Eleni; Beisvag, Vidar; Furriol, Jessica; Marti, Hans Peter (Peer reviewed; Journal article, 2022)Clear cell renal cell carcinoma (ccRCC) is the most common renal cancer. Identification of ccRCC likely to progress, despite an apparent low risk at the time of surgery, represents a key clinical issue. From a cohort of ... -
Patient derived colonoids as drug testing platforms-Critical importance of oxygen concentration
Skovdahl, Helene Kolstad; Gopalakrishnan, Shreya; Svendsen, Tarjei Dahl; Granlund, Atle van Beelen; Bakke, Ingunn; Ginbot, Zekarias; Thorsvik, Silje; Flatberg, Arnar; Sporsheim, Bjørnar; Ostrop, Jenny; Mollnes, Tom Eirik; Sandvik, Arne Kristian; Bruland, Torunn (Peer reviewed; Journal article, 2021)Treatment of inflammatory bowel disease (IBD) is challenging, with a series of available drugs each helping only a fraction of patients. Patients may face time-consuming drug trials while the disease is active, thus there ... -
Peripheral blood cells inform on the presence of breast cancer: A population‐based case–control study
Dumeaux, Vanessa; Ursini‐Siegel, Josie; Flatberg, Arnar; Fjøsne, Hans Erikssønn; Frantzen, Jan Ole; Holmen, Marit Muri; Rodegerdts, Enno; Schlichting, Ellen; Lund, Eiliv (Journal article; Peer reviewed, 2015)Tumor–host interactions extend beyond the local microenvironment and cancer development largely depends on the ability of malignant cells to hijack and exploit the normal physiological processes of the host. Here, we ... -
Physiological hypoxia improves growth and functional differentiation of human intestinal epithelial organoids
Walaas, Gunnar Andreas; Gopalakrishnan, Shreya; Bakke, Ingunn; Skovdahl, Helene Kolstad; Flatberg, Arnar; Østvik, Ann Elisabeth; Sandvik, Arne Kristian; Bruland, Torunn (Peer reviewed; Journal article, 2023)Background: The epithelium in the colonic mucosa is implicated in the pathophysiology of various diseases, including inflammatory bowel diseases and colorectal cancer. Intestinal epithelial organoids from the colon (colonoids) ... -
Relevance of TNBS-Colitis in Rats: A Methodological Study with Endoscopic, Historical and Transcripttomic Characterization and Correlation to IBD
Brenna, Øystein; Furnes, Marianne Waldum; Drozdov, Ignat; Granlund, Atle Van Beelen; Flatberg, Arnar; Sandvik, Arne Kristian; Zwiggelaar, Rosalie; Mårvik, Ronald; Nordrum, Ivar Skjåk; Kidd, Mark; Gustafsson, Björn (Journal article; Peer reviewed, 2013)Background: Rectal instillation of trinitrobenzene sulphonic acid (TNBS) in ethanol is an established model for inflammatory bowel disease (IBD). We aimed to 1) set up a TNBS-colitis protocol resulting in an endoscopic ...