Morten Beck Rye
+4773598591
+4772573415
Laboratoriesenteret, 5.etg øst, Øya, Erling Skjalgssons g 1
About
My research activity is in the translational field between computational transcriptomics, metabolomics, epigenetics and gene regulation to improve disease outcome predictions and treatment decisions for prostate cancer. This is achieved through a collaboration between BiGR and the MR Cancer Group at NTNU and Department of Urology at St. Olavs Hospital. In our research, I and my colleagues are trying to understand what separates aggressive from indolent prostate cancers at the molecular level through integration of data from various high throughput technologies.
Due to increased focus on men’s health through campaigns and public debate, it is expected that the number of men tested for prostate cancer will increase. A challenge in current prostate cancer diagnostics is the separation of prostate cancer in low, intermediate and high risk groups based on the acquired clinical data, which includes MR-images, tissue biopsies and blood-samples. Limitations in the classification system sometimes lead to undertreatment of high risk cancers. However, a more common problem is probably the tendency to overtreat low risk cancers resulting in unwanted side-effects from treatment for a large group of patients. The goal of our research is to improve the detection of high and low risk prostate cancer in clinical care, both at initial diagnosis and during active surveillance of the disease.
We are currently developing robust classifiers for aggressive prostate cancer based on molecular data from tissue biopsies. However, our long term vision is that aggressive prostate cancer should be classified through minimally invasive blood-samples or non-invasively through MR-imaging. To achieve this we need to focus on extensive analysis of patient tissue samples using state-of-the-art technology improve our understanding on how prostate tissue characteristics, molecular signals and image features are connected. This is currently the focus of the ongoing ProstOmics project.
Current research directions:
Development and validation of a gene expression signature which can robustly separate indolent and aggressive prostate cancer from clinical patient biopsies.
Inegrating data produced in the ProstOmics project with other huge resources of publicly available data to connect molecular data with tissue and image features. The long-term goal is to improve non-invasive classification of aggressive prostate cancer
Investigating the potential of epigenetic markers for detection of aggressive prostate cancer in blood, urine and prostatic fluid.
In addition I am also involved in the Bioinformatics Core Facility and the Bioinformatics Helpdesk for Elixir Norway, where I am assisting other researchers with bioinformatics analysis, particularly involving Next Generation Sequencing (NGS) data. I am also responsible for an annual course in NGS analysis, hosted biannually by NORBIS.
Publications
2024
-
Wess, Maximilian;
Andersen, Maria Karoline;
Midtbust, Elise;
Guillem, Juan Carlos Cabellos;
Viset, Trond;
Størkersen, Øystein.
(2024)
Spatial Integration of Multi-Omics Data using the novel Multi-Omics Imaging Integration Toolset.
bioRxiv
Academic article
-
Bergum, Olaug Elisabeth Torheim;
Singleton, Amanda Holstad;
Røst, Lisa Marie Ivarsdatter;
Rye, Morten Beck;
Otterlei, Marit;
Bruheim, Per.
(2024)
SOS genes are rapidly induced while translesion synthesis polymerase activity is temporally regulated.
Frontiers in Microbiology
Academic article
-
Andersen, Maria K.;
Krossa, Sebastian;
Midtbust, Elise;
Pedersen, Christine Aaserød;
Wess, Maximilian;
Høiem, Therese Stork.
(2024)
Spatial transcriptomics reveals strong association between SFRP4 and extracellular matrix remodeling in prostate cancer.
Communications Biology
Academic article
-
Kiviaho, Antti;
Eerola, Sini K.;
Kallio, Heini M.L.;
Andersen, Maria K.;
Hoikka, Miina;
Salonen, Iida.
(2024)
Single cell and spatial transcriptomics highlight the interaction of club-like cells with immunosuppressive myeloid cells in prostate cancer.
Nature Communications
Academic article
2023
-
Andersen, Maria Karoline;
Krossa, Sebastian;
Midtbust, Elise;
Pedersen, Christine Aaserød;
Wess, Maximilian;
Høiem, Therese Stork.
(2023)
Spatial transcriptomics reveals strong association between SFRP4 and extracellular matrix remodeling in prostate cancer.
Research Square
Academic article
2022
-
Hansen, Ailin Falkmo;
Høiem, Therese Stork;
Selnæs, Kirsten Margrete;
Bofin, Anna M.;
Størkersen, Øystein;
Bertilsson, Helena.
(2022)
Prediction of recurrence from metabolites and expression of TOP2A and EZH2 in prostate cancer patients treated with radiotherapy.
NMR in Biomedicine
Academic article
-
Andersen, Maria Karoline;
Krossa, Sebastian;
Midtbust, Elise;
Viset, Trond;
Størkersen, Øystein;
Giskeødegård, Guro F..
(2022)
Multiomics spatial mapping of lipid metabolism in prostate cancer.
European Urology
Abstract
-
Krossa, Sebastian;
Andersen, Maria Karoline;
Midtbust, Elise;
Viset, Trond;
Størkersen, Øystein;
Giskeødegård, Guro.
(2022)
Inflammatory chemokines upregulated in the tumor microenvironment of prostate cancer patients experiencing relapse after radical prostatectomy.
European Urology
Abstract
-
Pedersen, Christine Aaserød;
Cao, Maria Dung;
Fleischer, Thomas;
Rye, Morten Beck;
Knappskog, Stian;
Eikesdal, Hans Petter.
(2022)
DNA methylation changes in response to neoadjuvant chemotherapy are associated with breast cancer survival.
Breast Cancer Research
Academic article
-
Grapotte, Mathys;
Saraswat, Manu;
Bessière, Chloé;
Menichelli, Christophe;
Ramilowski, Jordan A.;
Severin, Jessica.
(2022)
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network (Nature Communications, (2021), 12, 1, (3297), 10.1038/s41467-021-23143-7).
Nature Communications
Errata
-
Rise, Kjersti;
Tessem, May-Britt;
Drabløs, Finn;
Rye, Morten Beck.
(2022)
FunHoP analysis reveals upregulation of mitochondrial genes in prostate cancer.
PLOS ONE
Academic article
-
Misund, Kristine;
Hofste op Bruinink, Davine;
Coward, Eivind;
Hoogenboezem, Remco M.;
Rustad, Even Holth;
Sanders, Mathijs A..
(2022)
Clonal evolution after treatment pressure in multiple myeloma: heterogenous genomic aberrations and transcriptomic convergence.
Leukemia
Academic article
-
Rye, Morten Beck;
Krossa, Sebastian;
Hall, Martina;
van Mourik, Casper;
Bathen, Tone Frost;
Drabløs, Finn.
(2022)
The genes controlling normal function of citrate and spermine secretion are lost in aggressive prostate cancer and prostate model systems.
iScience
Academic article
-
Emdal, Elisabeth Fritzke;
Ottestad, Anine Larsen;
Vågbø, Cathrine Broberg;
Skarpeteig, Veronica ;
Rye, Morten Beck.
(2022)
Prøv deg som en DNA-detektiv.
Forskningstorget 2022
Other presentation
2021
-
Vandsemb, Esten;
Rye, Morten Beck;
Steiro, Ida Johnsen;
Elsaadi, Samah;
Rø, Torstein Baade;
Slørdahl, Tobias Schmidt.
(2021)
PRL-3 induces a positive signaling circuit between glycolysis and activation of STAT1/2.
The FEBS Journal
Academic article
-
Rise, Kjersti;
Tessem, May-Britt;
Drabløs, Finn;
Rye, Morten Beck.
(2021)
FunHoP: Enhanced Visualization and Analysis of Functionally Homologous Proteins in Complex Metabolic Networks.
Genomics, Proteomics & Bioinformatics (GPB)
Academic article
-
Andersen, Maria Karoline;
Høiem, Therese Stork;
Claes, Britt S.R.;
Balluff, Benjamin;
Marta, Martin-Lorenzo;
Richardsen, Elin.
(2021)
Spatial differentiation of metabolism in prostate cancer tissue by MALDI-TOF MSI.
Cancer & Metabolism
Academic article
2020
-
Rauluseviciute, Ieva;
Drabløs, Finn;
Rye, Morten Beck.
(2020)
DNA hypermethylation associated with upregulated gene expression in prostate cancer demonstrates the diversity of epigenetic regulation.
BMC Medical Genomics
Academic article
-
Jalili, Mahsa;
Gerdol, Marco;
Greco, S.;
Pallavicini, Alberto;
Buonocore, Francesco;
Scapigliati, Giuseppe.
(2020)
Differential Effects of Dietary Supplementation of Krill Meal, Soybean Meal, Butyrate, and Bactocell® on the Gene Expression of Atlantic Salmon Head Kidney.
International Journal of Molecular Sciences
Academic article
-
Zwiggelaar, Rosalie;
Lindholm, Håvard Takle;
Fosslie, Madeleine Lystad;
Pedersen, Marianne Terndrup;
Ohta, Yuki;
Sanchez, Alberto Diez.
(2020)
LSD1 represses a neonatal/reparative gene program in adult intestinal epithelium.
Science Advances
Academic article
2019
-
Grinde, Maria Tunset;
Hilmarsdòttir, Bylgja;
Tunset, Hanna Maja;
Henriksen, Ida Marie;
Kim, Jana;
Haugen, Mads Haugland.
(2019)
Glutamine to proline conversion is associated with response to glutaminase inhibition in breast cancer .
Breast Cancer Research
Academic article
-
Vardaxis, Ioannis;
Drabløs, Finn;
Rye, Morten Beck;
Lindqvist, Bo Henry.
(2019)
MACPET: model-based analysis for ChIA-PET.
Biostatistics
Academic article
-
Reuluseviciute, Ieva;
Drabløs, Finn;
Rye, Morten Beck.
(2019)
DNA methylation data by sequencing: experimental approaches and recommendations for tools and pipelines for data analysis.
Clinical Epigenetics
Academic literature review
2018
-
Tekle, Kidane M;
Gundersen, Sveinung;
Klepper, Kjetil;
Bongo, Lars Ailo;
Raknes, Inge Alexander;
Li, Xiaxi.
(2018)
Norwegian e-Infrastructure for Life Sciences (NeLS).
F1000 Research
Academic article
-
Andersen, Maria Karoline;
Rise, Kjersti;
Giskeødegård, Guro F.;
Richardsen, Elin;
Bertilsson, Helena;
Størkersen, Øystein.
(2018)
Integrative metabolic and transcriptomic profiling of prostate cancer tissue containing reactive stroma.
Scientific Reports
Academic article
-
Rye, Morten Beck;
Bertilsson, Helena;
Andersen, Maria Karoline;
Rise, Kjersti;
Bathen, Tone Frost;
Drabløs, Finn.
(2018)
Cholesterol synthesis pathway genes in prostate cancer are transcriptionally downregulated when tissue confounding is minimized.
BMC Cancer
Academic article
-
Søgaard, Caroline Danielsen;
Moestue, Siver Andreas;
Rye, Morten Beck;
Kim, Jana;
Nepal, Anala;
Liabakk, Nina-Beate.
(2018)
APIM-peptide targeting PCNA improves the efficacy of docetaxel treatment in the TRAMP mouse model of prostate cancer.
OncoTarget
Academic article
2017
-
Sandsmark, Elise;
Andersen, Maria Karoline;
Bofin, Anna M.;
Bertilsson, Helena;
Drabløs, Finn;
Bathen, Tone Frost.
(2017)
SFRP4 gene expression is increased in aggressive prostate cancer.
Scientific Reports
Academic article
2016
-
Hansen, Ailin Falkmo;
Sandsmark, Elise;
Rye, Morten Beck;
Wright, Alan J;
Bertilsson, Helena;
Richardsen, Elin.
(2016)
Presence of TMPRSS2-ERG is associated with alterations of the metabolic profile in human prostate cancer.
OncoTarget
Academic article
-
Sandsmark, Elise;
Hansen, Ailin Falkmo;
Selnæs, Kirsten Margrete;
Bertilsson, Helena;
Bofin, Anna M.;
Wright, Alan J..
(2016)
A novel non-canonical Wnt signature for prostate cancer aggressiveness.
OncoTarget
Academic article
-
Vandsemb, Esten Nymoen;
Bertilsson, Helena;
Abdollahi, Pegah;
Størkersen, Øystein;
Våtsveen, Thea Kristin;
Rye, Morten Beck.
(2016)
Phosphatase of regenerating liver 3 (PRL-3) is overexpressed in human prostate cancer tissue and promotes growth and migration.
Journal of Translational Medicine
Academic article
-
Tessem, May-Britt;
Bertilsson, Helena;
Angelsen, Anders;
Bathen, Tone Frost;
Drabløs, Finn Sverre;
Rye, Morten Beck.
(2016)
A balanced tissue composition reveals new metabolic and gene expression markers in prostate cancer.
PLOS ONE
Academic article
2015
-
Hurst, Laurence D.;
Ghanbarian, Avazeh T.;
Forrest, Alistair R.R.;
Huminiecki, Lukasz;
Haberle, Vanja;
Drabløs, Finn Sverre.
(2015)
The constrained maximal expression level owing to haploidy shapes gene content on the mammalian X chromosome.
PLoS Biology
Academic article
-
Rydbeck, Halfdan;
Sandve, Geir Kjetil F.;
Ferkingstad, Egil;
Simovski, Boris;
Rye, Morten Beck;
Hovig, Johannes Eivind.
(2015)
ClusTrack: Feature extraction and similarity measures for clustering of genome-wide data sets.
PLOS ONE
Academic article
2014
-
Tessem, May-Britt;
Rye, Morten Beck.
(2014)
Early markers of a potentially dangerous type of prostate cancer.
Website (informational material)
-
Forest, Alistair R.R.;
Kawaji, Hideya;
Rehli, Michael;
Baillie, John Kenneth;
de Hoon, Michiel;
Haberle, Vanja.
(2014)
A promoter-level mammalian expression atlas.
Nature
Academic article
-
Rye, Morten Beck;
Bertilsson, Helena;
Drabløs, Finn;
Angelsen, Anders;
Bathen, Tone Frost;
Tessem, May-Britt.
(2014)
Gene signatures ESC, MYC and ERG-fusion are early markers of a potentially dangerous subtype of prostate cancer.
BMC Medical Genomics
Academic article
-
Rye, Morten Beck;
Sandve, Geir Kjetil F.;
Daub, Carsten O;
Kawaji, H;
Carninci, P;
Forrest, A.
(2014)
Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines.
BMC Genomics
Academic article
2013
-
Sandve, Geir Kjetil;
Gundersen, Sveinung;
Johansen, Morten;
Glad, Ingrid Kristine;
Gunathasan, Krishanthi;
Holden, Lars.
(2013)
The Genomic HyperBrowser: an analysis web server for genome-scale data.
Nucleic Acids Research (NAR)
Academic article
-
Hofsli, Eva;
Sjursen, Wenche;
Prestvik, Wenche S;
Johansen, Jostein;
Rye, Morten Beck;
Tranø, Gerd.
(2013)
Identification of serum microRNA profiles in colon cancer.
British Journal of Cancer
Academic article
2012
-
Rye, Morten Beck;
Færgestad, Ellen Mosleth.
(2012)
Preprocessing of electrophoretic images in 2-DE analysis.
Chemometrics and Intelligent Laboratory Systems
Academic article
-
Kornacker, K;
Rye, Morten Beck;
Håndstad, Tony;
Drabløs, Finn.
(2012)
The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding.
BMC Bioinformatics
Academic article
-
Håndstad, Tony;
Rye, Morten Beck;
Mocnik, Rok;
Drabløs, Finn;
Sætrom, Pål.
(2012)
Cell-type specificity of ChIP-predicted transcription factor binding sites.
BMC Genomics
Academic article
2011
-
Rye, Morten Beck;
Sætrom, Pål;
Drabløs, Finn.
(2011)
A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs.
Nucleic Acids Research (NAR)
Academic article
-
Sun, Cheng;
Fiksdal, Liv;
Hanssen-Bauer, Audun;
Rye, Morten Beck;
Leiknes, TorOve.
(2011)
Characterization of membrane biofouling at different operating conditions (flux) in drinking water treatment using confocal laser scanning microscopy (CLSM) and image analysis.
Journal of Membrane Science
Academic article
-
Færgestad, Ellen Mosleth;
Rye, Morten Beck;
Nhek, Sarin;
Hollung, Kristin;
Grove, Harald.
(2011)
The Use of Chemometrics to Analyse Protein Patterns from Gel Electrophoresis.
Acta Chromatographica
Academic literature review
-
Rye, Morten Beck;
Sætrom, Pål;
Håndstad, Tony;
Drabløs, Finn.
(2011)
Clustered ChIP-Seq-defined transcription factor binding sites and histone modifications map distinct classes of regulatory elements.
BMC Biology
Academic article
-
Håndstad, Tony;
Rye, Morten Beck;
Drabløs, Finn;
Sætrom, Pål.
(2011)
A ChIP-Seq Benchmark Shows That Sequence Conservation Mainly Improves Detection of Strong Transcription Factor Binding Sites.
PLOS ONE
Academic article
2008
-
Rye, Morten Beck;
Alsberg, Bjørn Kåre.
(2008)
A multivariate spot filtering model for two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Færgestad, Ellen Mosleth;
Martens, Harald;
Wold, Jens-Petter;
Alsberg, Bjørn Kåre.
(2008)
An improved pixel-based approach for analyzing images in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Mosleth, Ellen Færgestad;
Alsberg, Bjørn Kåre.
(2008)
A new method for assigning common spot boundaries for multiple gels in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Feargestad, EM;
Martens, H;
Wold, JP;
Alsberg, Bjørn Kåre.
(2008)
An improved pixel-based approach for analyzing images in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
2007
-
Mosleth, Ellen Færgestad;
Rye, Morten Beck;
Walczak, Beata;
Gidskehaug, Lars;
Wold, Jens Petter;
Grove, Harald.
(2007)
Pixel-based analysis of multiple images for the identification of changes: A novel approach applied to unravel proteome patters of 2-D electrophoresis gel images.
Proteomics
Academic article
-
Rye, Morten Beck.
(2007)
Image segmentation and multivariate analysis in two-dimensional gel electrophoresis.
Doktoravhandlinger ved NTNU (200)
Doctoral dissertation
Journal publications
-
Wess, Maximilian;
Andersen, Maria Karoline;
Midtbust, Elise;
Guillem, Juan Carlos Cabellos;
Viset, Trond;
Størkersen, Øystein.
(2024)
Spatial Integration of Multi-Omics Data using the novel Multi-Omics Imaging Integration Toolset.
bioRxiv
Academic article
-
Bergum, Olaug Elisabeth Torheim;
Singleton, Amanda Holstad;
Røst, Lisa Marie Ivarsdatter;
Rye, Morten Beck;
Otterlei, Marit;
Bruheim, Per.
(2024)
SOS genes are rapidly induced while translesion synthesis polymerase activity is temporally regulated.
Frontiers in Microbiology
Academic article
-
Andersen, Maria K.;
Krossa, Sebastian;
Midtbust, Elise;
Pedersen, Christine Aaserød;
Wess, Maximilian;
Høiem, Therese Stork.
(2024)
Spatial transcriptomics reveals strong association between SFRP4 and extracellular matrix remodeling in prostate cancer.
Communications Biology
Academic article
-
Kiviaho, Antti;
Eerola, Sini K.;
Kallio, Heini M.L.;
Andersen, Maria K.;
Hoikka, Miina;
Salonen, Iida.
(2024)
Single cell and spatial transcriptomics highlight the interaction of club-like cells with immunosuppressive myeloid cells in prostate cancer.
Nature Communications
Academic article
-
Andersen, Maria Karoline;
Krossa, Sebastian;
Midtbust, Elise;
Pedersen, Christine Aaserød;
Wess, Maximilian;
Høiem, Therese Stork.
(2023)
Spatial transcriptomics reveals strong association between SFRP4 and extracellular matrix remodeling in prostate cancer.
Research Square
Academic article
-
Hansen, Ailin Falkmo;
Høiem, Therese Stork;
Selnæs, Kirsten Margrete;
Bofin, Anna M.;
Størkersen, Øystein;
Bertilsson, Helena.
(2022)
Prediction of recurrence from metabolites and expression of TOP2A and EZH2 in prostate cancer patients treated with radiotherapy.
NMR in Biomedicine
Academic article
-
Andersen, Maria Karoline;
Krossa, Sebastian;
Midtbust, Elise;
Viset, Trond;
Størkersen, Øystein;
Giskeødegård, Guro F..
(2022)
Multiomics spatial mapping of lipid metabolism in prostate cancer.
European Urology
Abstract
-
Krossa, Sebastian;
Andersen, Maria Karoline;
Midtbust, Elise;
Viset, Trond;
Størkersen, Øystein;
Giskeødegård, Guro.
(2022)
Inflammatory chemokines upregulated in the tumor microenvironment of prostate cancer patients experiencing relapse after radical prostatectomy.
European Urology
Abstract
-
Pedersen, Christine Aaserød;
Cao, Maria Dung;
Fleischer, Thomas;
Rye, Morten Beck;
Knappskog, Stian;
Eikesdal, Hans Petter.
(2022)
DNA methylation changes in response to neoadjuvant chemotherapy are associated with breast cancer survival.
Breast Cancer Research
Academic article
-
Grapotte, Mathys;
Saraswat, Manu;
Bessière, Chloé;
Menichelli, Christophe;
Ramilowski, Jordan A.;
Severin, Jessica.
(2022)
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network (Nature Communications, (2021), 12, 1, (3297), 10.1038/s41467-021-23143-7).
Nature Communications
Errata
-
Rise, Kjersti;
Tessem, May-Britt;
Drabløs, Finn;
Rye, Morten Beck.
(2022)
FunHoP analysis reveals upregulation of mitochondrial genes in prostate cancer.
PLOS ONE
Academic article
-
Misund, Kristine;
Hofste op Bruinink, Davine;
Coward, Eivind;
Hoogenboezem, Remco M.;
Rustad, Even Holth;
Sanders, Mathijs A..
(2022)
Clonal evolution after treatment pressure in multiple myeloma: heterogenous genomic aberrations and transcriptomic convergence.
Leukemia
Academic article
-
Rye, Morten Beck;
Krossa, Sebastian;
Hall, Martina;
van Mourik, Casper;
Bathen, Tone Frost;
Drabløs, Finn.
(2022)
The genes controlling normal function of citrate and spermine secretion are lost in aggressive prostate cancer and prostate model systems.
iScience
Academic article
-
Vandsemb, Esten;
Rye, Morten Beck;
Steiro, Ida Johnsen;
Elsaadi, Samah;
Rø, Torstein Baade;
Slørdahl, Tobias Schmidt.
(2021)
PRL-3 induces a positive signaling circuit between glycolysis and activation of STAT1/2.
The FEBS Journal
Academic article
-
Rise, Kjersti;
Tessem, May-Britt;
Drabløs, Finn;
Rye, Morten Beck.
(2021)
FunHoP: Enhanced Visualization and Analysis of Functionally Homologous Proteins in Complex Metabolic Networks.
Genomics, Proteomics & Bioinformatics (GPB)
Academic article
-
Andersen, Maria Karoline;
Høiem, Therese Stork;
Claes, Britt S.R.;
Balluff, Benjamin;
Marta, Martin-Lorenzo;
Richardsen, Elin.
(2021)
Spatial differentiation of metabolism in prostate cancer tissue by MALDI-TOF MSI.
Cancer & Metabolism
Academic article
-
Rauluseviciute, Ieva;
Drabløs, Finn;
Rye, Morten Beck.
(2020)
DNA hypermethylation associated with upregulated gene expression in prostate cancer demonstrates the diversity of epigenetic regulation.
BMC Medical Genomics
Academic article
-
Jalili, Mahsa;
Gerdol, Marco;
Greco, S.;
Pallavicini, Alberto;
Buonocore, Francesco;
Scapigliati, Giuseppe.
(2020)
Differential Effects of Dietary Supplementation of Krill Meal, Soybean Meal, Butyrate, and Bactocell® on the Gene Expression of Atlantic Salmon Head Kidney.
International Journal of Molecular Sciences
Academic article
-
Zwiggelaar, Rosalie;
Lindholm, Håvard Takle;
Fosslie, Madeleine Lystad;
Pedersen, Marianne Terndrup;
Ohta, Yuki;
Sanchez, Alberto Diez.
(2020)
LSD1 represses a neonatal/reparative gene program in adult intestinal epithelium.
Science Advances
Academic article
-
Grinde, Maria Tunset;
Hilmarsdòttir, Bylgja;
Tunset, Hanna Maja;
Henriksen, Ida Marie;
Kim, Jana;
Haugen, Mads Haugland.
(2019)
Glutamine to proline conversion is associated with response to glutaminase inhibition in breast cancer .
Breast Cancer Research
Academic article
-
Vardaxis, Ioannis;
Drabløs, Finn;
Rye, Morten Beck;
Lindqvist, Bo Henry.
(2019)
MACPET: model-based analysis for ChIA-PET.
Biostatistics
Academic article
-
Reuluseviciute, Ieva;
Drabløs, Finn;
Rye, Morten Beck.
(2019)
DNA methylation data by sequencing: experimental approaches and recommendations for tools and pipelines for data analysis.
Clinical Epigenetics
Academic literature review
-
Tekle, Kidane M;
Gundersen, Sveinung;
Klepper, Kjetil;
Bongo, Lars Ailo;
Raknes, Inge Alexander;
Li, Xiaxi.
(2018)
Norwegian e-Infrastructure for Life Sciences (NeLS).
F1000 Research
Academic article
-
Andersen, Maria Karoline;
Rise, Kjersti;
Giskeødegård, Guro F.;
Richardsen, Elin;
Bertilsson, Helena;
Størkersen, Øystein.
(2018)
Integrative metabolic and transcriptomic profiling of prostate cancer tissue containing reactive stroma.
Scientific Reports
Academic article
-
Rye, Morten Beck;
Bertilsson, Helena;
Andersen, Maria Karoline;
Rise, Kjersti;
Bathen, Tone Frost;
Drabløs, Finn.
(2018)
Cholesterol synthesis pathway genes in prostate cancer are transcriptionally downregulated when tissue confounding is minimized.
BMC Cancer
Academic article
-
Søgaard, Caroline Danielsen;
Moestue, Siver Andreas;
Rye, Morten Beck;
Kim, Jana;
Nepal, Anala;
Liabakk, Nina-Beate.
(2018)
APIM-peptide targeting PCNA improves the efficacy of docetaxel treatment in the TRAMP mouse model of prostate cancer.
OncoTarget
Academic article
-
Sandsmark, Elise;
Andersen, Maria Karoline;
Bofin, Anna M.;
Bertilsson, Helena;
Drabløs, Finn;
Bathen, Tone Frost.
(2017)
SFRP4 gene expression is increased in aggressive prostate cancer.
Scientific Reports
Academic article
-
Hansen, Ailin Falkmo;
Sandsmark, Elise;
Rye, Morten Beck;
Wright, Alan J;
Bertilsson, Helena;
Richardsen, Elin.
(2016)
Presence of TMPRSS2-ERG is associated with alterations of the metabolic profile in human prostate cancer.
OncoTarget
Academic article
-
Sandsmark, Elise;
Hansen, Ailin Falkmo;
Selnæs, Kirsten Margrete;
Bertilsson, Helena;
Bofin, Anna M.;
Wright, Alan J..
(2016)
A novel non-canonical Wnt signature for prostate cancer aggressiveness.
OncoTarget
Academic article
-
Vandsemb, Esten Nymoen;
Bertilsson, Helena;
Abdollahi, Pegah;
Størkersen, Øystein;
Våtsveen, Thea Kristin;
Rye, Morten Beck.
(2016)
Phosphatase of regenerating liver 3 (PRL-3) is overexpressed in human prostate cancer tissue and promotes growth and migration.
Journal of Translational Medicine
Academic article
-
Tessem, May-Britt;
Bertilsson, Helena;
Angelsen, Anders;
Bathen, Tone Frost;
Drabløs, Finn Sverre;
Rye, Morten Beck.
(2016)
A balanced tissue composition reveals new metabolic and gene expression markers in prostate cancer.
PLOS ONE
Academic article
-
Hurst, Laurence D.;
Ghanbarian, Avazeh T.;
Forrest, Alistair R.R.;
Huminiecki, Lukasz;
Haberle, Vanja;
Drabløs, Finn Sverre.
(2015)
The constrained maximal expression level owing to haploidy shapes gene content on the mammalian X chromosome.
PLoS Biology
Academic article
-
Rydbeck, Halfdan;
Sandve, Geir Kjetil F.;
Ferkingstad, Egil;
Simovski, Boris;
Rye, Morten Beck;
Hovig, Johannes Eivind.
(2015)
ClusTrack: Feature extraction and similarity measures for clustering of genome-wide data sets.
PLOS ONE
Academic article
-
Forest, Alistair R.R.;
Kawaji, Hideya;
Rehli, Michael;
Baillie, John Kenneth;
de Hoon, Michiel;
Haberle, Vanja.
(2014)
A promoter-level mammalian expression atlas.
Nature
Academic article
-
Rye, Morten Beck;
Bertilsson, Helena;
Drabløs, Finn;
Angelsen, Anders;
Bathen, Tone Frost;
Tessem, May-Britt.
(2014)
Gene signatures ESC, MYC and ERG-fusion are early markers of a potentially dangerous subtype of prostate cancer.
BMC Medical Genomics
Academic article
-
Rye, Morten Beck;
Sandve, Geir Kjetil F.;
Daub, Carsten O;
Kawaji, H;
Carninci, P;
Forrest, A.
(2014)
Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines.
BMC Genomics
Academic article
-
Sandve, Geir Kjetil;
Gundersen, Sveinung;
Johansen, Morten;
Glad, Ingrid Kristine;
Gunathasan, Krishanthi;
Holden, Lars.
(2013)
The Genomic HyperBrowser: an analysis web server for genome-scale data.
Nucleic Acids Research (NAR)
Academic article
-
Hofsli, Eva;
Sjursen, Wenche;
Prestvik, Wenche S;
Johansen, Jostein;
Rye, Morten Beck;
Tranø, Gerd.
(2013)
Identification of serum microRNA profiles in colon cancer.
British Journal of Cancer
Academic article
-
Rye, Morten Beck;
Færgestad, Ellen Mosleth.
(2012)
Preprocessing of electrophoretic images in 2-DE analysis.
Chemometrics and Intelligent Laboratory Systems
Academic article
-
Kornacker, K;
Rye, Morten Beck;
Håndstad, Tony;
Drabløs, Finn.
(2012)
The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding.
BMC Bioinformatics
Academic article
-
Håndstad, Tony;
Rye, Morten Beck;
Mocnik, Rok;
Drabløs, Finn;
Sætrom, Pål.
(2012)
Cell-type specificity of ChIP-predicted transcription factor binding sites.
BMC Genomics
Academic article
-
Rye, Morten Beck;
Sætrom, Pål;
Drabløs, Finn.
(2011)
A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs.
Nucleic Acids Research (NAR)
Academic article
-
Sun, Cheng;
Fiksdal, Liv;
Hanssen-Bauer, Audun;
Rye, Morten Beck;
Leiknes, TorOve.
(2011)
Characterization of membrane biofouling at different operating conditions (flux) in drinking water treatment using confocal laser scanning microscopy (CLSM) and image analysis.
Journal of Membrane Science
Academic article
-
Færgestad, Ellen Mosleth;
Rye, Morten Beck;
Nhek, Sarin;
Hollung, Kristin;
Grove, Harald.
(2011)
The Use of Chemometrics to Analyse Protein Patterns from Gel Electrophoresis.
Acta Chromatographica
Academic literature review
-
Rye, Morten Beck;
Sætrom, Pål;
Håndstad, Tony;
Drabløs, Finn.
(2011)
Clustered ChIP-Seq-defined transcription factor binding sites and histone modifications map distinct classes of regulatory elements.
BMC Biology
Academic article
-
Håndstad, Tony;
Rye, Morten Beck;
Drabløs, Finn;
Sætrom, Pål.
(2011)
A ChIP-Seq Benchmark Shows That Sequence Conservation Mainly Improves Detection of Strong Transcription Factor Binding Sites.
PLOS ONE
Academic article
-
Rye, Morten Beck;
Alsberg, Bjørn Kåre.
(2008)
A multivariate spot filtering model for two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Færgestad, Ellen Mosleth;
Martens, Harald;
Wold, Jens-Petter;
Alsberg, Bjørn Kåre.
(2008)
An improved pixel-based approach for analyzing images in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Mosleth, Ellen Færgestad;
Alsberg, Bjørn Kåre.
(2008)
A new method for assigning common spot boundaries for multiple gels in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Rye, Morten Beck;
Feargestad, EM;
Martens, H;
Wold, JP;
Alsberg, Bjørn Kåre.
(2008)
An improved pixel-based approach for analyzing images in two-dimensional gel electrophoresis.
Electrophoresis
Academic article
-
Mosleth, Ellen Færgestad;
Rye, Morten Beck;
Walczak, Beata;
Gidskehaug, Lars;
Wold, Jens Petter;
Grove, Harald.
(2007)
Pixel-based analysis of multiple images for the identification of changes: A novel approach applied to unravel proteome patters of 2-D electrophoresis gel images.
Proteomics
Academic article
Report
-
Rye, Morten Beck.
(2007)
Image segmentation and multivariate analysis in two-dimensional gel electrophoresis.
Doktoravhandlinger ved NTNU (200)
Doctoral dissertation
UTSTILLING
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Emdal, Elisabeth Fritzke;
Ottestad, Anine Larsen;
Vågbø, Cathrine Broberg;
Skarpeteig, Veronica ;
Rye, Morten Beck.
(2022)
Prøv deg som en DNA-detektiv.
Forskningstorget 2022
Other presentation
INFORMASJONSMATR
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Tessem, May-Britt;
Rye, Morten Beck.
(2014)
Early markers of a potentially dangerous type of prostate cancer.
Website (informational material)
Teaching
Courses
- MOL3000 - Innføring i molekylærmedisin
- MOL3022 - Bioinformatikk - metodeorientert prosjekt
- MOL3021 - Bioinformatikk - anvendt prosjekt
- MOL8001 - Molekylær fysiologi: mekanismer og metoder
- MOL8008 - Bioinformatics Methods for next Generation Sequencing Analysis
- MOL3100 - Innføring i molekylærmedisin med prosjektoppgave
Knowledge Transfer
2024
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Academic lectureWess, Maximilian; Andersen, Maria Karoline; Midtbust, Elise; Guillem, Juan Carlos Cabellos; Viset, Trond; Størkersen, Øystein. (2024) Integration of Spatial Transcriptomics and Mass Spectrometry Imaging using MIIT. VIB Conference Spatial Omics , Ghent, Belgium 2024-06-13 - 2024-06-14
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PosterSingh, Mithlesh Prasad; Wess, Maximilian; Rye, Morten Beck; Lehti, Kaisa Irene; Tessem, May-Britt; Andersen, Maria K.. (2024) Unveiling Spatial Metabolism in Prostate Cancer Tissue: Applying Explainable Machine Learning to Mass Spectrometry Imaging Data. Biomarker Discovery with MSI and Explainable Machine Learning. VIB-KU Leuven Spatial Omics 2024 a VIB Tools and Technologies conference , Ghent 2024-06-13 - 2024-06-14
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PosterAndersen, Maria Karoline; Krossa, Sebastian; Midtbust, Elise; Pedersen, Christine Aaserød; Wess, Maximilian; Viset, Trond. (2024) Spatial transcriptomics reveals biomarker SFRP4 to be strongly associated with extracellular matrix remodeling in prostate cancer stroma. VIB Spatial Omics , Gent 2024-06-13 - 2024-06-14
2023
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Academic lectureAndersen, Maria Karoline; Midtbust, Elise; Krossa, Sebastian; Viset, Trond; Størkersen, Øystein; Vandenbosch, Michiel. (2023) Spatial multiomics show lipid metabolism alterations in prostate cancer. Regional Mass Spectrometry Imaging Spring Workshop , Uppsala 2023-04-27 - 2023-04-29
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Academic lectureWess, Maximilian; Andersen, Maria Karoline; Midtbust, Elise; Krossa, Sebastian; Rye, Morten Beck; Tessem, May-Britt. (2023) Integration of Spatial Multi-Omics Data for Prostate Cancer Classification. Swedish Academy of Pharmaceutical Sciences Regional Mass Spectrometry Imaging Spring Workshop , Uppsala, Swede 2023-03-27 - 2023-03-29
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Academic lectureWess, Maximilian; Andersen, Maria Karoline; Midtbust, Elise; Krossa, Sebastian; Rye, Morten Beck; Tessem, May-Britt. (2023) Registration-based Integration of Spatial Multi-Omics Data for Prostate Cancer Classification. NTNU The 3rd Nordic Metabolomics Conference , Trondheim, Norway 2023-10-18 - 2023-10-20
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PosterWess, Maximilian; Andersen, Maria Karoline; Midtbust, Elise; Krossa, Sebastian; Rye, Morten Beck; Tessem, May-Britt. (2023) Prostate Cancer Classification using Registration-based Integration of Spatial Multi-Omics Data. NTNU NTNU Health , Trondheim, Norway 2023-10-23 - 2023-10-23
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PosterWess, Maximilian; Andersen, Maria Karoline; Midtbust, Elise; Guillem, Juan Carlos Cabellos; Krossa, Sebastian; Rye, Morten Beck. (2023) Registration-based Integration of Spatially Resolved Multi-Omics Data for Prostate Cancer Classification. PRESIMAL PRESIMAL Autumn Research School 2023 , Sommarøya, Norway 2023-09-13 - 2023-09-15
2022
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Academic lectureKrossa, Sebastian; Andersen, Maria Karoline; Midtbust, Elise; Wess, Maximilian; Viset, Trond; Størkersen, Øystein. (2022) Inflamed normal appearing glands in the tumor microenvironment of prostate cancer are associated with relapse after radical prostatectomy. Norsk Biokjemisk Selskap NBS Contact Meeting 2022 , Tromsø 2022-02-10 - 2022-02-12
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Academic lectureAndersen, Maria Karoline; Krossa, Sebastian; Midtbust, Elise; Pedersen, Christine Aaserød; Wess, Maximillian; Viset, Trond. (2022) Spatial transcriptomics reveals biomarker SFRP4 to be strongly associated with extracellular matrix remodeling in prostate cancer stroma. University of Oslo The Norwegian Cancer Symposium 2022 , Oslo 2022-09-14 - 2022-09-15
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PosterAndersen, Maria Karoline; Krossa, Sebastian; Midtbust, Elise; Høiem, Therese Stork; Viset, Trond; Størkersen, Øystein. (2022) Multiomics spatial analysis shows lipid metabolism alterations in prostate cancer. CA19105 EpiLipidNET Cost Action 3rd EpiLipidNET Action Meeting , Aveiro 2022-09-21 - 2022-09-23
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PosterPedersen, Christine Aaserød; Midtbust, Elise; Krossa, Sebastian; Andersen, Maria Karoline; Viset, Trond; Størkersen, Øystein. (2022) DNA methylation aberrations predicts recurrence both in tumor and normal appearing prostate tissue. European Association of Urology European Association of Urology conference 2022 , Amsterdam 2022-06-30 - 2022-07-04
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PosterKrossa, Sebastian; Andersen, Maria Karoline; Midtbust, Elise; Wess, Maximilian; Viset, Trond; Størkersen, Øystein. (2022) Inflamed normal appearing glands in the tumor microenvironment of prostate cancer are associated with relapse after radical prostatectomy. The Norwegian Cancer Symposium 2022 2022-09-14 - 2022-09-15
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PosterAndersen, Maria Karoline; Krossa, Sebastian; Midtbust, Elise; Høiem, Therese Stork; Viset, Trond; Størkersen, Øystein. (2022) Multiomics spatial analysis shows lipid metabolism alterations in prostate cancer. Digitalt Life Digital Life Conference 2022 , Trondheim 2022-10-20 - 2022-10-21
2021
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Academic lectureWess, Maximilian; Andersen, Maria Karoline; Krossa, Sebastian; Rye, Morten Beck; Tessem, May-Britt. (2021) Spatial Integration of Multi-Omics Data for Prostate Cancer Classification. Institut Curie Computational Systems Biology of Cancer multiomics and machine learning , Virtual 2021-09-27 - 2021-10-01
2020
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Academic lectureRye, Morten Beck; Bertilsson, Helena; Krossa, Sebastian; Bathen, Tone Frost; Drabløs, Finn; Tessem, May-Britt. (2020) A gene signature for citrate and spermine (CS) secretion in the prostate. Sahlgrenska Academy, University of Gothenburg Swedish Symposium on Prostate Cancer Research , Gøteborg 2020-02-03 - 2020-02-04
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Academic lectureRise, Kjersti; Tessem, May-Britt; Drabløs, Finn; Rye, Morten Beck. (2020) How FunHoP changed the picture. Mabalacat City College MCC International Webinar Series 2020-10-10 -
2019
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LectureRye, Morten Beck; Nygård, Ståle; Drabløs, Finn; Petersen, Kjell; Våge, Dag Inge; Willassen, Nils Peder. (2019) ELIXIR.NO - The national infrastructure of bioinformatics. Norsk Biokjemisk Selskap Norwegian Biochemical Society 55th Contact Meeting , Røros 2019-01-24 - 2019-01-27
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LectureRye, Morten Beck; Bertilsson, Helena; Krossa, Sebastian; Bathen, Tone Frost; Drabløs, Finn; Tessem, May-Britt. (2019) The genes controlling citrate and spermine secretion in prostate cancer. Norsk Biokjemisk Selskap Norwegian Biochemical Society 55th Contact Meeting , Røros 2019-01-24 - 2019-01-27
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LectureRye, Morten Beck; Tessem, May-Britt; Krossa, Sebastian; Bathen, Tone Frost; Drabløs, Finn; Bertilsson, Helena. (2019) The expression of genes controlling citrate and spermine secretion is lost in aggressive prostate cancer and metastasis. Nordisk Urologisk Forening The 32nd NUF Congress , Reykjavik 2019-08-05 - 2019-08-08
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PosterJalili, Mahsa; Gerdol, Marco; Greco, Samuele; Pallavicini, Alberto; Buonocore, Francesco; Scapigliati, Giuseppe. (2019) Altered transcription levels of immune markers in head kidney of Atlantic salmon after different feedings. Scandinavian Society of Immunology Scandinavian Society of Immunology conference 2019-12-01 -
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PosterAndersen, Maria Karoline; Høiem, Therese Stork; Balluff, Benjamin; Claes, Britt S.R.; Martin-Lorenzo, Marta; Richardsen, Elin. (2019) Altered metabolism in prostate cancer and stroma detected through MALDI-TOF MSI. Metabolomics Society Metabolomics 2019 , The Hague 2019-06-23 - 2019-06-27
2018
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PosterAndersen, Maria Karoline; Rise, Kjersti; Giskeødegård, Guro F.; Richardsen, Elin; Bertilsson, Helena; Størkersen, Øystein. (2018) Integrative metabolic and transcriptomic profiling of prostate cancer tissue containing reactive stroma. ISMRM ISMRM Workshop on Advances in Multiscale Cancer Detection: From Micro to Macro , Dublin 2018-10-07 - 2018-10-10
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PosterAndersen, Maria Karoline; Høiem, Therese Stork; Balluff, Benjamin; Martin-Lorenzo, Marta; Richardsen, Elin; Bertilsson, Helena. (2018) Altered metabolism in prostate cancer and stroma detected through MALDI-TOF MSI. IMSS IMSS II & OurCon VI Joint Meeting , Charleston 2018-11-11 - 2018-11-14
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PosterRise, Kjersti; Drabløs, Finn; Rye, Morten Beck. (2018) FunHoP – Enhanced visualisation and analysis of functionally homologous proteins in complex metabolic networks. International Study Group for Systems Biology 2018-09-24 - 2018-09-28
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PosterRise, Kjersti; Drabløs, Finn; Rye, Morten Beck. (2018) Cell Lines vs. Tissue - A Comparative Study of Gene Expression Using FunHoP. International Conference on Systems Biology 2018-10-28 - 2018-11-01
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PosterRye, Morten Beck; Bertilsson, Helena; Andersen, Maria Karoline; Rise, Kjersti; Bathen, Tone Frost; Drabløs, Finn. (2018) Computational minimization of stroma tissue confounding reveals systematic downregulation of cholesterol synthesis pathway genes in prostate cancer . Hellenic Society for Computational Biology and Bioinformatic ECCB 2018 - 17th European Conference on Computational Biology , Athen 2018-09-08 - 2918-09-12
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Popular scientific lectureRye, Morten Beck. (2018) When Prostate Cancer Becomes Dangerous!. Medisinsk Fakultet Health Innovation Seminar , Trondheim 2018-03-21 - 2018-03-21
2017
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Academic lectureRye, Morten Beck; Bertilsson, Helena; Andersen, Maria Karoline; Rise, Kjersti; Bathen, Tone Frost; Drabløs, Finn. (2017) Transcriptional downregulation of cholesterol synthesis pathway genes in prostate cancer. NBS - Norsk Biokjemisk Selskap The 53rd Contact Meeting , Storefjell Resort Hotel, Gol 2017-01-19 -
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Academic lectureRye, Morten Beck; Bertilsson, Helena; Andersen, Maria Karoline; Rise, Kjersti; Bathen, Tone Frost; Drabløs, Finn. (2017) Computational assessment of tissue heterogeneity in patient tissue samples reveals that cholesterol synthesis pathway genes in prostate cancer are consistently downregulated. Swiss Institute of Bioinformatics BC2 Computational Biology Conference , Basel 2017-09-12 - 2017-09-15
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Academic lectureRye, Morten Beck; Tessem, May-Britt; Andersen, Maria Karoline; Rise, Kjersti; Bathen, Tone Frost; Drabløs, Finn. (2017) Cholesterol synthesis pathway genes in prostate cancer are downregulated. Scandinavian Association of Urology 31st NUF Congress , Odense 2017-06-14 - 2017-06-16
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Academic lectureRise, Kjersti; Drabløs, Finn; Rye, Morten Beck. (2017) Aggregating RNA-Seq reads from multiple genes in KEGG metabolic pathways improves interpretability in gene expression pathway analysis. International Conference on Systems Biology , Blacksburg, Virginia 2017-08-06 - 2017-08-12
2016
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PosterSandsmark, Elise; Hansen, Ailin Falkmo; Selnæs, Kirsten Margrete; Bertilsson, Helena; Bofin, Anna M.; Wright, Alan J. (2016) A novel non-canonical wnt signature associated with Gleason score, recurrence, metastases and metabolic alterations in prostate cancer. The 8th National PhD Conference in Medical Imaging 2016-11-21 - 2016-11-22
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LectureRye, Morten Beck; Bertilsson, Helena; Andersen, Maria Karoline; Rise, Kjersti; Bathen, Tone Frost; Drabløs, Finn Sverre. (2016) Transcriptional downregulation of cholesterol synthesis revealed as a hallmark for prostate cancer after adjustment for confounding stroma. EAU- european Association of Urology ESUR16 - 23rd Meeting of the EAU Section of Urological Research , Parma 2016-10-20 - 2016-10-22
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Academic lectureSandsmark, Elise; Hansen, Ailin Falkmo; Bertilsson, Helena; Selnæs, Kirsten Margrete; Wright, Alan; Bofin, Anna M.. (2016) Non-canonicle Wnt5a signalling is associated with EMT and metabolic alterations in human prostate cancer. NTNU Current and Future Clinical Biomarkers of Cancer , Trondheim 2016-06-16 - 2016-06-17
2015
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PosterSandsmark, Elise; Selnæs, Kirsten Margrete; Bertilsson, Helena; Bofin, Anna M.; Wright, Alan; Viset, Trond. (2015) Non-canonical Wnt5a-Fizzled2 signaling is associated with metabolic reprogramming and biochemical recurrence in human prostate cancer. ESUR-SBUR15 - The 11th World Congress on Urological Research , Nijmegen 2015-09-10 - 2015-09-12
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Academic lectureHansen, Ailin Falkmo; Sandsmark, Elise; Rye, Morten Beck; Wright, Alan; Bertilsson, Helena; Sjøbakk, Torill Eidhammer. (2015) TMPRSS2:ERG gene fusion in human prostate cancer is associated with altered metabolism. Norsk Biokjemisk Selskap NBS contact meeting Svalbard , Svalbard 2015-02-09 - 2015-02-13
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Academic lectureHansen, Ailin Falkmo; Sandsmark, Elise; Rye, Morten Beck; Wright, Alan; Bertilsson, Helena; Bofin, Anna M.. (2015) TMPRSS2:ERG gene fusion and ERG overexpression in human prostate cancer are associated with changed metabolism. ISMRM 2015 , Toronto 2015-05-30 - 2015-07-05
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Academic lectureSandsmark, Elise; Hansen, Ailin Falkmo; Bertilsson, Helena; Selnæs, Kirsten Margrete; Wright, Alan J; Axcrona, K. (2015) Non-canonical Wnt5a signalling is associated with EMT and metabolic alterations in human prostate cancer. ESMRMB 2015 Congress 2015-10-01 - 2015-10-03
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PosterSandsmark, Elise; Hansen, Ailin Falkmo; Rye, Morten Beck; Wright, Alan; Bertilsson, Helena; Sjøbakk, Torill Eidhammer. (2015) TMPRSS2:ERG gene fusion in human prostate cancer shows decreased levels of citrate and spermine . Helse Nord-Trøndelag Regional forskningskonferanse i Helse Midt-Norge , Sjørdal 2015-06-09 - 2015-06-10
2014
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Academic lectureRye, Morten Beck; Bertilsson, Helena; Drabløs, Finn; Angelsen, Anders; Bathen, Tone Frost; Tessem, May-Britt. (2014) Subtype classification of prostate cancer. IKM Onsdagsmøte, IKM , Kunnskapssenteret, St.Olav 2014-01-15 - 2014-01-15
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Academic lectureRye, Morten Beck; Sandve, Geir Kjetil F.; Daub, Carsten O; Kawaji, Hideya; Carninci, Piero; Forrest, Alistair. (2014) Repressed promoters in active chromatin. Society for Bioinformatics in Northern Europe (SocBiN) SocBiN Bioinformatics 2014 , Oslo 2014-06-11 - 2014-06-13
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Academic lectureRye, Morten Beck; Bertilsson, Helena; Bathen, Tone Frost; Drabløs, Finn; Tessem, May-Britt. (2014) Tissue heterogeneity and data integration in prostate cancer. Program for Bioinformatikk (PBI) Bioinformatics Network Seminar: Biological networks – from genes to populations , Sumhuset, Trondheim 2014-12-08 - 2014-12-08
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PosterRye, Morten Beck; Bertilsson, Helena; Bathen, Tone Frost; Drabløs, Finn; Tessem, May-Britt. (2014) Simplifying methods for adjusting tissue heterogeneity pinpoint genes responsible for altered metabolism in prostate cancer samples. EAU Section of Urological Research (ESUR) ESUR 2014 , Glasgow, Scotland 2014-10-09 - 2014-10-11
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PosterRye, Morten Beck; Sandve, Geir Kjetil F.; Daub, Carsten O; Kawaji, Hideya; Carninci, Piero; Forrest, Alistair. (2014) Chromatin data integrated with a human reference atlas of experimentally defined promoters reveal repressed promoters located in active chromatin. Society for Bioinformatics in Northern Europe (SocBiN) SocBiN Bioinformatics 2014 , Oslo 2014-06-11 - 2014-06-13
2013
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Academic lectureRye, Morten Beck. (2013) Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines. Karolinska Institut Faglig besøk til Karolinska Institut , Stockholm 2013-04-12 - 2013-04-12
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PosterKornacker, Karl; Rye, Morten Beck; Håndstad, Tony; Drabløs, Finn. (2013) The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding. COST TD801 StatSeq 5th StatSeq Workshop , Helsinki 2013-04-24 - 2013-04-26
2012
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Academic lectureDrabløs, Finn; Kornacker, Karl; Rye, Morten Beck; Håndstad, Tony. (2012) The Triform algorithm: improved sensitivity and specificity in ChIP-Seq peak finding. Norwegian Bioinformatics Forum , Trondheim 2012-10-18 - 2012-10-19
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Academic lectureDrabløs, Finn; Rye, Morten Beck; Klepper, Kjetil; Sætrom, Pål. (2012) Definition and analysis of gene sets from time series data. FANTOM RIKEN FANTOM time-courses meeting , Yokohama 2012-10-29 - 2012-11-02
2011
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PosterRye, Morten Beck; Drabløs, Finn; Sætrom, Pål; Håndstad, Tony. (2011) Epigenetic Influence on Cell-type specific peaks from ChIP-Seq data. Keystone Symposia Histone code: Fact or fiction? , Midway, Utah 2011-01-10 - 2011-01-15
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PosterRye, Morten Beck; Sætrom, Pål; Håndstad, Tony; Drabløs, Finn. (2011) Clusters of ChIP-Seq defined transcription factor binding sites map regulatory elelemnts in the human genome. Cambridge Research Institute Unanswered Questions in Transcription, Annual international Symposium , Cambridge 2011-11-04 - 2011-11-05
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Academic lectureRye, Morten Beck. (2011) Transcription factors and histone modifications. Joint Friday meeting, Systems Biology and BiGR group 2011-03-10 -
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Academic lectureRye, Morten Beck. (2011) Transcription factors and histone modifications. FUGE, Bergen BFYS 2011 (Bioinformatics for young scientists) , Ullensvang 2011-03-16 - 2011-03-18
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Academic lectureRye, Morten Beck. (2011) Epigenetics and SNPs. eGenVar kickoff meating , NTNU, Trondheim 2011-03-25 -
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Academic lectureRye, Morten Beck. (2011) Chemometrics in Medicine. Faggruppa for Kjemometri Seminar i forbindelse med årsmøte i faggruppa for kjemometri , NTNU, Trondheim 2011-04-04 -
2010
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Academic lectureRye, Morten Beck. (2010) A manually curated ChIP-seq benchmark demonstrates room for improvement in current peak-finder programs. NBF, Norwegian Bioinformatics Forum 2010 , Radiumhospitalet, Oslo 2010-11-18 - 2010-11-19
2009
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Programme participationElvestad, Maiken Bratt; Gjerde, Anne Heidi; Hanssen-Bauer, Audun; Fladvad, Torill; Gilljam, Karin Margaretha; Bergstrøm, Bjarte. (2009) Forskningsdagene 2009. Forskningstorget Forskningstorget [TV] 2009-09-25
2008
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PosterFærgestad, Ellen Mosleth; Høy, Martin; Grove, Harald; Gidskehaug, Lars; Moldestad, Anette Aamodt; Hollung, Kristin. (2008) An improved and rapid method for analysis of 2-DE images; a pixel based approach. FROM GENOME TO PROTEOME: INTEGRATION AND PROTEOME COMPLETION , Siena, Italy 2008-08-31 - 2008-09-04
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PosterMartens, Harald; Høy, Martin; Grove, Harald; Moldestad, Anette; Hollung, Kristin; Rye, Morten Beck. (2008) An improved and rapid method for analysis of 2-DE images; a pixel based approach. 8, Siena Meeting: From genome to proteome , Siena, italy 2008-08-28 - 2008-09-04
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PosterRye, Morten Beck. (2008) Pixel-based approach for identifying significant features in two-dimensional gel electrophoresis. Iris NPC2008, 4th Annual Norwegian Proteomics Conference , Ulstein 2008-10-20 - 2008-10-21
2006
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Academic lectureRye, Morten Beck; Alsberg, Bjørn Kåre. (2006) Separering av proteinsegment fra støysegment ved DPLSR i 2D gel elektroforese. 18. norske kjemometrisymposium , Hafjell 2006-03-20 - 2006-03-22
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PosterRye, Morten Beck; Alsberg, Bjørn Kåre. (2006) Automatic spot classification in 2DE gel analysis. 7th Siena Meeting From Genome To Proteome , Siena 2006-09-03 - 2006-09-07
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PosterRye, Morten Beck; Mosleh Færgestad, Ellen; Grove, Harald; Van Der Berg, Franz; Martens, Harald; Hollung, Kristin. (2006) Viewing Images As Spectra: A Novel approach of analysing 2DE proteome data. 7th Siena Meeting. From Genome To Proteome , Siena 2006-09-03 - 2006-09-07
2005
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Academic lectureRye, Morten Beck; Alsberg, Bjørn Kåre. (2005) Comparing Segmentation methods in Two-Dimensional Gel Electrophoresis. BFYS 2005 2005-04-15 - 2005-04-17
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PosterRye, Morten Beck; Alsberg, Bjørn Kåre. (2005) Protein spot classification by PLSR in two dimensional gel electrophoresis. SSC9 - 9th Scandinavian Symposium on Chemometrics 2005-08-21 - 2005-08-25