Blar i St. Olavs hospital på forfatter "Bakke, Ingunn"
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Code-Free Development and Deployment of Deep Segmentation Models for Digital Pathology
Pettersen, Henrik P Sahlin; Belevich, Ilya; Røyset, Elin Synnøve; Smistad, Erik; Simpson, Melanie Rae; Jokitalo, Eija; Reinertsen, Ingerid; Bakke, Ingunn; Pedersen, André (Peer reviewed; Journal article, 2022)Application of deep learning on histopathological whole slide images (WSIs) holds promise of improving diagnostic efficiency and reproducibility but is largely dependent on the ability to write computer code or purchase ... -
Comprehensive protocols for culturing and molecular biological analysis of IBD patient-derived colon epithelial organoids
Gopalakrishnan, Shreya; Bakke, Ingunn; Hansen, Marianne Dore; Skovdahl, Helene Kolstad; Granlund, Atle van Beelen; Sandvik, Arne Kristian; Bruland, Torunn (Journal article; Peer reviewed, 2023) -
Deep learning-based image analysis reveals significant differences in the number and distribution of mucosal CD3 and γδ T cells between Crohn's disease and ulcerative colitis
Røyset, Elin Synnøve; Pettersen, Henrik Sahlin; Xu, Weili; Larbi, Anis; Sandvik, Arne Kristian; Steigen, Sonja Eriksson; Catalan-Serra, Ignacio; Bakke, Ingunn (Peer reviewed; Journal article, 2022)Colon mucosae of ulcerative colitis (UC) and Crohn's disease (CD) display differences in the number and distribution of immune cells that are difficult to assess by eye. Deep learning-based analysis on whole slide images ... -
Intestinal epithelial cells express immunomodulatory ISG15 during active ulcerative colitis and Crohn's disease
Østvik, Ann Elisabet; Svendsen, Tarjei Dahl; Granlund, Atle van Beelen; Doseth, Berit; Skovdahl, Helene Kolstad; Bakke, Ingunn; Thorsvik, Silje; Afroz, Wahida; Walaas, Gunnar Andreas; Mollnes, Tom Eirik; Gustafsson, Björn; Sandvik, Arne Kristian; Bruland, Torunn (Peer reviewed; Journal article, 2020)Background and Aims Intestinal epithelial cells [IECs] secrete cytokines that recruit immune cells to the mucosa and regulate immune responses that drive inflammation in inflammatory bowel disease [IBD]. However, experiments ... -
Microencapsulation of small intestinal neuroendocrine neoplasm cells for tumor model studies
Rokstad, Anne Mari; Gustafsson, Björn; Espevik, Terje; Bakke, Ingunn; Pfragner, Roswitha; Svejda, Bernhard; Modlin, Irvin M; Kidd, Mark (Journal article; Peer reviewed, 2012)Basic cancer research is dependent on reliable in vitro and in vivo tumor models. The serotonin (5‐HT) producing small intestinal neuroendocrine tumor cell line KRJ‐1 has been used in in vitro proliferation and secretion ... -
Mucosal and faecal neutrophil gelatinase-associated lipocalin as potential biomarkers for collagenous colitis
Bakke, Ingunn; Walaas, Gunnar Andreas; Bruland, Torunn; Røyset, Elin Synnøve; Granlund, Atle van Beelen; Escudero-Hernandez, Celia; Thorsvik, Silje; Münch, Andreas; Sandvik, Arne Kristian; Østvik, Ann Elisabet (Peer reviewed; Journal article, 2021)Background Collagenous colitis (CC) is an inflammatory bowel disease where chronic diarrhoea is the main symptom. Diagnostic markers distinguishing between CC and other causes of chronic diarrhoea remain elusive. This study ... -
NR4A2 is regulated by Gastrin and involved in gastrin-induced migration and invasion of gastric adenocarcinoma cells
Misund, Kristine; Selvik, Linn-Karina M.; Rao, Shalini; Nørsett, Kristin Gabestad; Bakke, Ingunn; Sandvik, Arne; Lægreid, Astrid; Bruland, Torunn; Prestvik, Wenche S; Thommesen, Liv (Peer reviewed; Journal article, 2013)The peptide hormone gastrin is known to play a role in differentiation, growth and apoptosis of cells in the gastric mucosa. In this study we demonstrate that gastrin induces Nuclear Receptor 4A2 (NR4A2) expression in the ... -
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 ... -
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) ... -
Profound gene expression changes in the epithelial monolayer of active ulcerative colitis and Crohn's disease
Sæterstad, Siri; Østvik, Ann Elisabet; Røyset, Elin Synnøve; Bakke, Ingunn; Sandvik, Arne Kristian; Granlund, Atle van Beelen (Peer reviewed; Journal article, 2022)In recent years it has become apparent that the epithelium is highly involved in inflammatory bowel disease (IBD) pathophysiology. The majority of gene expression studies of IBD are generated from heterogeneous biopsies, ... -
Tofacitinib Downregulates TNF and Poly(I:C)-Dependent MHC-II Expression in the Colonic Epithelium
Gopalakrishnan, Shreya; Hansen, Marianne Dore; Skovdahl, Helene Kolstad; Roseth, Ingrid Aass; Granlund, Atle van Beelen; Østvik, Ann Elisabet; Bakke, Ingunn; Sandvik, Arne Kristian; Bruland, Torunn (Peer reviewed; Journal article, 2022)Major Histocompatibility Complex (MHC)-I and -II genes are upregulated in intestinal epithelial cells (IECs) during active inflammatory bowel diseases (IBD), but little is known about how IBD-relevant pro-inflammatory ... -
Ulcer-associated cell lineage expresses genes involved in regeneration and is hallmarked by high neutrophil gelatinase-associated lipocalin (NGAL) levels
Thorsvik, Silje; Granlund, Atle van Beelen; Svendsen, Tarjei Dahl; Bakke, Ingunn; Røyset, Elin Synnøve; Flo, Trude Helen; Damås, Jan Kristian; Østvik, Ann Elisabet; Bruland, Torunn; Sandvik, Arne Kristian (Peer reviewed; Journal article, 2019)Neutrophil gelatinase‐associated lipocalin (NGAL), also known as Lipocalin 2, is an antimicrobial protein, encoded by the gene LCN2, strongly upregulated in inflammatory bowel disease (IBD) and a promising biomarker for ...