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Memetic Robot Control Evolution and Adaption to Reality 
Ruud, Else-Line Malene; Samuelsen, Eivind; Glette, Kyrre (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2016)
Inspired by animals’ ability to learn and adapt to changes in their environment during life, hybrid evolutionary algorithms have been developed and successfully applied in a number of research areas. This paper explores ...
HS1BP3 negatively regulates autophagy by modulation of phosphatidic acid levels 
Holland, Petter; Knævelsrud, Helene; Søreng, Kristiane; Mathai, Benan John; Lystad, Alf Håkon; Pankiv, Serhiy; Bjørndal, Gunnveig Toft; Schultz, Sebastian; Lobert, Viola; Chan, Robin B; Zhou, Bowen; Liestøl, Knut; Carlsson, Sven R; Melia, Thomas J; Di Paolo, Gilbert; Simonsen, Anne (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
A fundamental question is how autophagosome formation is regulated. Here we show that the PX domain protein HS1BP3 is a negative regulator of autophagosome formation. HS1BP3 depletion increased the formation of LC3-positive ...
Evolutionary redesign of the Atlantic cod (Gadus morhua L.) Toll-like receptor repertoire by gene losses and expansions 
Solbakken, Monica Hongrø; Tørresen, Ole Kristian; Nederbragt, Alexander Johan; Seppola, Marit; Gregers, Tone Fredsvik; Jakobsen, Kjetill Sigurd; Jentoft, Sissel (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Genome sequencing of the teleost Atlantic cod demonstrated loss of the Major Histocompatibility Complex (MHC) class II, an extreme gene expansion of MHC class I and gene expansions and losses in the innate pattern recognition ...
Proto Design Practice: translating design thinking practices to organizational settings 
Pandey, Sumit (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
The nature of services is becoming complex, indeterminate and often transformational and hence designed solutions need to allow for continuous and ongoing evolution by building up organizational capacity for sustained ...
Designing for Prolonged Mastery. On involving old people in Participatory Design 
Joshi, Suhas Govind; Bratteteig, Tone (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
In this paper, we report on a participatory design (PD) process with old users. We discuss how we organized and carried out the process so that our users could participate in the mutual learning and co-construction activities ...
Designing for Capacities Rather Than Disabilities. Investigating the relationship between psychomotor capacities and interaction opportunities 
Joshi, Suhas Govind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
This paper explores how designing based on psychomotor capacities instead of disabilities can reconnect old people with technology. We introduce four alternative designs for radios to demonstrate how facilitating a design ...
The Land of Confusion – Clearing up some common misunderstandings of interpretive research 
Munkvold, Bjørn Erik; Bygstad, Bendik (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Qualitative research approaches are now well established in information systems research, and are given equal weight as quantitative research in research methods courses in graduate programs. Similar, the heated paradigm ...
Reflections on Behavioural Computer Science 
Johansen, Christian; Pedersen, Tore; Jøsang, Audun (Research report / Forskningsrapport / PublishedVersionAcceptedVersionPublishedVersionAcceptedVersion; Peer reviewed, 2016)
The rapidly increasing pervasiveness and integration of computers in human and animal society calls for a broad discipline under which this development can be studied. We argue that to design and use technology one needs ...
A qualitative study of success criteria in Norwegian agile software projects from suppliers’ perspective 
Siddique, Lubna; Hussein, Bassam A. (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
This paper provides practical insights into the success criteria in agile projects in the Norwegian software industry. We conducted 32 interviews with practitioners working with agile projects. The findings revealed two ...
Neil3-dependent base excision repair regulates lipid metabolism and prevents atherosclerosis in Apoe-deficient mice 
Skarpengland, Tonje; Holm, Sverre; Scheffler, Katja; Gregersen, Ida; Dahl, Tuva Børresdatter; Suganthan, Rajikala; Segers, Filip; Østlie, Ingunn; Otten, Jeroen J.T.; Gomez, Luisa Fernanda Luna; Ketelhuth, Daniel F.J.; Lundberg, Anna M.; Neurauter, Christine Gran; Hildrestrand, Gunn Annette; Skjelland, Mona; Bjørndal, Bodil; Svardal, Asbjørn M.; Iversen, Per Ole; Hedin, Ulf; Nygård, Ståle; Olstad, Ole Kristoffer; Krohg-Sørensen, Kirsten; Slupphaug, Geir; Eide, Lars; Kusnierczyk, Anna; Folkersen, Lasse; Ueland, Thor; Berge, Rolf Kristian; Hansson, Göran K.; Biessen, Erik A.L.; Halvorsen, Bente; Bjørås, Magnar; Aukrust, Pål (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Increasing evidence suggests that oxidative DNA damage accumulates in atherosclerosis. Recently, we showed that a genetic variant in the human DNA repair enzyme NEIL3 was associated with increased risk of myocardial ...
Efficient network isolation and load balancing in multi-tenant HPC clusters 
Zahid, Feroz; Gran, Ernst Gunnar; Bogdanski, Bartosz; Johnsen, Bjørn Dag; Skeie, Tor (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2016)
Multi-tenancy promises high utilization of available system resources and helps maintaining costeffective operations for service providers. However, multi-tenant high-performance computing (HPC) infrastructures, like dynamic ...
Grounded Theory Study of Conflicts in Norwegian Agile Software Projects: The Project Managers’ Perspective 
Siddique, Lubna; Hussein, Bassam A. (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
This paper aims to explore the process of conflicts in agile software projects. The purpose was to investigate the causes and consequences of these conflicts. For this purpose, we conducted a qualitative study involving ...
Local favoritism in at-large proportional representation systems 
Fiva, Jon H.; Halse, Askill Harkjerr (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2016)
Pork barrel spending is typically attributed to the strategic behavior of political elites hoping to be electorally rewarded by voters residing in their districts. Such behavior is expected to depend on the incentives ...
How to say that you're special: Can we use bits in the IPv4 header? 
Barik, Runa; Welzl, Michael; Elmokashfi, Ahmed (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2016)
The IP header should be the ideal part of a packet that an end sys- tem could use to ask the network for special treatment. Recently, there has been renewed interest in using bits of this header – e.g. the ECN and the ...
The Mycobacterium tuberculosis transcriptional landscape under genotoxic stress 
Namouchi, Amine; Gomez Munoz, Marta; Frye, Stephan Alfons; Moen, Line Victoria; Rognes, Torbjørn; Tonjum, Tone; Balasingham, Seetha (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Background: As an intracellular human pathogen, Mycobacterium tuberculosis (Mtb) is facing multiple stressful stimuli inside the macrophage and the granuloma. Understanding Mtb responses to stress is essential to identify ...
Open-Source Sequence Clustering Methods Improve the State Of the Art 
Kopylova, Evguenia; Navas-Molina, Jose A.; Mercier, Céline; Xu, Zhenjiang Zech; Mahé, Frédéric; He, Yan; Zhou, Hong-Wei; Rognes, Torbjørn; Caporaso, J. Gregory; Knight, Rob (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Sequence clustering is a common early step in amplicon-based microbial community analysis, when raw sequencing reads are clustered into operational taxonomic units (OTUs) to reduce the run time of subsequent analysis steps. ...
Start Me Up: Determining and Sharing TCP's Initial Congestion Window 
Islam, Safiqul; Welzl, Michael (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2016)
When multiple TCP connections are used between the same host pair, they often share a common bottleneck – especially when they are encapsulated together, e.g. in VPN scenarios. Then, all connections after the first should ...
cnvScan: a CNV screening and annotation tool to improve the clinical utility of computational CNV prediction from exome sequencing data 
Samarakoon, Pubudu S; Sorte, Hanne S; Stray-Pedersen, Asbjørg; Rødningen, Olaug K; Rognes, Torbjørn; Lyle, Robert (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Background With advances in next generation sequencing technology and analysis methods, single nucleotide variants (SNVs) and indels can be detected with high sensitivity and specificity in exome sequencing ...
A systematic comparison of copy number alterations in four types of female cancer 
Kaveh, Fatemeh; Baumbusch, Lars O; Nebdal, Daniel; Børresen-Dale, Anne-Lise; Lingjærde, Ole C; Edvardsen, Hege; Kristensen, Vessela N; Solvang, Hiroko K (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
Background Detection and localization of genomic alterations and breakpoints are crucial in cancer research. The purpose of this study was to investigate, in a methodological and biological perspective, ...
Preface: Innovation in HCI- What Can We Learn from Design Thinking? 
Culén, Alma Leora; Følstad, Asbjørn (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2016)
The First Step Toward Diagnosing Female Genital Schistosomiasis by Computer Image Analysis 
Holmen, Sigve Dhondup; Kleppa, Elisabeth; Lillebø, Kristine; Pillay, Pavitra; van Lieshout, Lisette; Taylor, Myra; Albregtsen, Fritz; Vennervald, Birgitte Jyding; Onsrud, Mathias; Kjetland, Eyrun Floerecke (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Schistosoma haematobium causes female genital schistosomiasis (FGS), which is a poverty-related disease in sub-Saharan Africa. Furthermore, it is co-endemic with human immunodeficiency virus (HIV), and biopsies from genital ...
Understanding the Role of Social Capital in Integrating Health Information Systems 
Mekonnen, Selamawit; Sahay, Sundeep; Lewis, John (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
This paper empirically explores the importance of social capital for the integration of Health Information Systems (HISs) by drawing a case study from Gujarat state of India HIS integration initiative. In light of the main ...
STAMP2 increases oxidative stress and is critical for prostate cancer 
Jin, Yang; Wang, Ling; Qu, Su; Sheng, Xia; Kristian, Alexandr; Mælandsmo, Gunhild M.; Pällmann, Nora; Yuca, Erkan; Tekedereli, Ibrahim; Gorgulu, Kivanc; Alpay, Neslihan; Sood, Anil; Lopez-Berestein, Gabriel; Fazli, Ladan; Rennie, Paul; Risberg, Bjørn; Wæhre, Håkon; Danielsen, Håvard E.; Ozpolat, Bulent; Saatcioglu, Fahri (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
The six transmembrane protein of prostate 2 (STAMP2) is an androgen‐regulated gene whose mRNA expression is increased in prostate cancer (PCa). Here, we show that STAMP2 protein expression is increased in human PCa compared ...
Canine Mammary Tumours Are Affected by Frequent Copy Number Aberrations, including Amplification of MYC and Loss of PTEN 
Borge, Kaja Sverdrup; Nord, Silje; Van Loo, Peter; Lingjærde, Ole Christian; Gunnes, Gjermund; Alnæs, Grethe I Grenaker; Solvang, Hiroko Kato; Luders, Torben; Kristensen, Vessela N.; Børresen-Dale, Anne-Lise; Lingaas, Frode (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Background Copy number aberrations frequently occur during the development of many cancers. Such events affect dosage of involved genes and may cause further genomic instability and progression of cancer. In this survey, ...
HCI and Design Thinking: Effects on Innovation in the Academic Library 
Culén, Alma Leora; Gasparini, Andrea A. (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2015)
This paper is concerned with how two design processes that are seemingly very similar, human-computer interaction design and design thinking, affect innovation in the context of an academic library. Twenty different ...
Chaospy: An open source tool for designing methods of uncertainty quantification 
Feinberg, Jonathan; Langtangen, Hans Petter (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
The paper describes the philosophy, design, functionality, and usage of the Python software toolbox Chaospy for performing uncertainty quantification via polynomial chaos expansions and Monte Carlo simulation. The paper ...
Gene expression profiling of Gram-negative bacteria-induced inflammation in human whole blood: The role of complement and CD14-mediated innate immune response 
Lau, Corinna; Olstad, Ole Kristoffer; Holden, Marit; Nygård, Ståle; Fure, Hilde; Lappegård, Knut Tore; Brekke, Ole Lars; Espevik, Terje; Hovig, Johannes Eivind; Mollnes, Tom Eirik (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Non-sterile pathogen-induced sepsis and sterile inflammation like in trauma or ischemia–reperfusion injury may both coincide with the life threatening systemic inflammatory response syndrome and multi-organ failure. ...
HCI Education: Innovation, Creativity and Design Thinking 
Culén, Alma Leora (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
Human-Computer Interaction (HCI) education needs re-thinking. In this paper, we explore how and what creativity and design thinking could contribute with, if included as a part of the HCI curriculum. The findings from ...
Mutual Shaping Between Technologies And Law: Memories Of Norwegian E-health Infrastructures 
Zaytseva Andreyevna, Anna (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
This work suggests a method to study mutual shaping between technologies and law drawing on empirical evidence from two different and simultaneously developing patient-oriented information systems in e-health. The approach ...
Structural decompositions for problems with global constraints 
Thorstensen, Evgenij (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
A wide range of problems can be modelled as constraint satisfaction problems (CSPs), that is, a set of constraints that must be satisfied simultaneously. Constraints can either be represented extensionally, by explicitly ...
BRAF V600E mutation in early-stage multiple myeloma: good response to broad acting drugs and no relation to prognosis 
Rustad, Even Holth; Dai, Hong Yan; Hov, Håkon; Coward, Eivind; Beisvag, Vidar; Myklebost, Ola; Hovig, Eivind; Nakken, Sigve; Vodak, Daniel; Meza-Zepeda, Leonardo A.; Sandvik, Arne Kristian; Wader, Karin Fahl; Misund, Kristine; Sundan, Anders; Aarset, Harald; Waage, Anders (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
In this study, we analyzed the prevalence and clone size of BRAF V600E mutation in 209 patients with multiple myeloma and related the results to clinical phenotype, response and survival. Biopsies were screened for BRAF ...
Improving cross-domain dependency parsing with dependency-derived clusters 
Lien, Jostein; Velldal, Erik; Øvrelid, Lilja (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2015)
This paper describes a semi-supervised approach to improving statistical dependency parsing using dependency-based word clusters. After applying a baseline parser to unlabeled text, clusters are induced using K-means with ...
Translocational renal cell carcinoma (t(6;11)(p21;q12) with transcription factor EB (TFEB) amplification and an integrated precision approach: a case report 
Lilleby, Wolfgang; Vlatkovic, Ljiljana; Meza-Zepeda, Leonardo A; Revheim, Mona-Elisabeth; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Introduction Renal cell carcinoma with the distinct type of t(6;11)(p21;q12) translocation (transcription factor EB) is a rare neoplasm. In the present case study, we show for the first time an autophagy ...
CD14 and complement crosstalk and largely mediate the transcriptional response to Escherichia coli in human whole blood as revealed by DNA microarray 
Lau, Corinna; Nygård, Ståle; Fure, Hilde; Olstad, Ole Kristoffer; Holden, Marit; Lappegård, Knut Tore; Brekke, Ole Lars; Espevik, Terje; Hovig, Johannes Eivind; Mollnes, Tom Eirik (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Systemic inflammation like in sepsis is still lacking specific diagnostic markers and effective therapeutics. The first line of defense against intruding pathogens and endogenous damage signals is pattern recognition by ...
ClusTrack: Feature extraction and similarity measures for clustering of genome-wide data sets 
Rydbeck, Halfdan; Sandve, Geir Kjetil F.; Ferkingstad, Egil; Simovski, Boris; Rye, Morten Beck; Hovig, Johannes Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Clustering is a popular technique for explorative analysis of data, as it can reveal subgroupings and similarities between data in an unsupervised manner. While clustering is routinely applied to gene expression data, there ...
Divergent androgen regulation of unfolded protein response pathways drives prostate cancer 
Sheng, Xia; Arnoldussen, Yke Jildouw; Storm, Margrethe Larsdatter; Tesikova, Martina; Nenseth, Hatice Zeynep; Zhao, Sen; Fazli, Ladan; Rennie, Paul S.; Risberg, Bjørn Åke; Wæhre, Haakon; Danielsen, Håvard Emil; Mills, Ian Geoffrey; Jin, Yang; Hotamisligil, Gökhan S; Saatcioglu, Fahri (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
The unfolded protein response (UPR) is a homeostatic mechanism to maintain endoplasmic reticulum (ER) function. The UPR is activated by various physiological conditions as well as in disease states, such as cancer. As ...
c-Myb Binding Sites in Haematopoietic Chromatin Landscapes 
Bengtsen, Mads; Klepper, Kjetil; Gundersen, Sveinung; Cuervo, Ignacio; Drabløs, Finn; Hovig, Johannes Eivind; Sandve, Geir Kjetil F.; Gabrielsen, Odd Stokke; Eskeland, Ragnhild (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Strict control of tissue-specific gene expression plays a pivotal role during lineage commit- ment. The transcription factor c-Myb has an essential role in adult haematopoiesis and func- tions as an oncogene when rearranged ...
Ontology-Based Integration of Cross-Linked Datasets 
Calvanese, Diego; Giese, Martin; Hovland, Dag; Rezk, Martin (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
In this paper we tackle the problem of answering SPARQL queries over virtually integrated databases. We assume that the entity resolution problem has already been solved and explicit information is available about which ...
Deciding Twig-definability of Node Selecting Tree Automata 
Antonopoulos, Timos; Hovland, Dag; Martens, Wim; Neven, Frank (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
Node selecting tree automata (NSTAs) constitute a general formalism defining unary queries over trees. Basically, a node is selected by an NSTA when it is visited in a selecting state during an accepting run. We consider ...
Mapping the global mRNA transcriptome during development of the murine first molar 
Landin, Maria Augusta Dos S Silva; Nygård, Ståle; Shabestari, Maziar; Babaie, Eshrat; Reseland, Janne Elin; Osmundsen, Harald (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
The main objective of this study was to map global geneexpression in order to provide information about the populations of mRNA species participating in murine tooth development at 24 h intervals, starting at the eleventh ...
Ontology Based Access to Exploration Data at Statoil 
Kharlamov, Evgeny; Jiménez-Ruiz, Ernesto; Lanti, Davide; Lie, Hallstein; Hovland, Dag; Pinkel, Christoph; Skjæveland, Martin G; Thorstensen, Evgenij; Rezk, Martin (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
Ontology Based Data Access (OBDA) is a prominent approach to query databases which uses an ontology to expose data in a conceptually clear manner by abstracting away from the technical schema-level details of the underlying ...
Local user-centric identity management 
Jøsang, Audun; Rosenberger, Christophe; Miralabé, Laurent; Klevjer, Henning; Varmedal, Kent A; Daveau, Jérôme; Husa, Knut E; Taugbøl, Petter (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Identity management is a rather general concept that covers technologies, policies and procedures for recognising and authenticating entities in ICT environments. Current identity management solutions often have inadequate ...
Tumor expression, plasma levels and genetic polymorphisms of the coagulation inhibitor TFPI are associated with clinicopathological parameters and survival in breast cancer, in contrast to the coagulation initiator TF 
Tinholt, Mari; Vollan, Hans K M; Sahlberg, Kristine K; Jernström, Sandra; Kaveh, Fatemeh; Lingjærde, Ole C; Kåresen, Rolf; Sauer, Torill; Kristensen, Vessela; Børresen-Dale, Anne-Lise; Sandset, Per M; Iversen, Nina (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Introduction Hypercoagulability in malignancy increases the risk of thrombosis, but is also involved in cancer progression. Experimental studies suggest that tissue factor (TF) and tissue factor pathway ...
Design of a Reference Handling System for Clinical DNA Sequencing Analysis 
Børsting, Jorun; Culén, Alma Leora; Eike, Morten Christoph (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2015)
DNA ploidy in curettage specimens identifies high-risk patients and lymph node metastasis in endometrial cancer 
Njølstad, Tormund Salvesen; Trovik, Jone; Hveem, Tarjei Sveinsgjerd; Kjæreng, Marna Lill; Kildal, Wanja; Pradhan, Manohar; Marcickiewicz, Janusz; Tingulstad, Solveig; Staff, Anne Cathrine; Haugland, Hans Kristian; Eraker, Runar; Oddenes, Klaus; Rokne, Jan Anders; Tjugum, Jostein; Lode, Margaret Sævik; Amant, Frédéric; Werner, Henrica Maria Johanna; Salvesen, Helga; Danielsen, Håvard Emil (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
Background: Preoperative risk stratification is essential in tailoring endometrial cancer treatment, and biomarkers predicting lymph node metastasis and aggressive disease are aspired in clinical practice. DNA ploidy ...
Automated amplicon design suitable for analysis of DNA variants by melting techniques 
Ekstrøm, Per O; Nakken, Sigve; Johansen, Morten; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Background The technological development of DNA analysis has had tremendous development in recent years, and the present deep sequencing techniques present unprecedented opportunities for detailed and ...
Reliability of High Speed Ultra Low Voltage Differential CMOS Logic 
Mirmotahari, Omid; Berg, Yngvar (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
In this paper, we present a solution to the ultra low voltage inverter by adding a keeper transistor in order to make the semi-floating-gate more stable and to reduce the current dissipation. Moreover, we also present a ...
Integrated analysis reveals microRNA networks coordinately expressed with key proteins in breast cancer 
Aure, Miriam R; Jernström, Sandra; Krohn, Marit; Vollan, Hans K M; Due, Eldri U; Rødland, Einar; Kåresen, Rolf; Ram, Prahlad; Lu, Yiling; Mills, Gordon B; Sahlberg, Kristine K; Børresen-Dale, Anne-Lise; Lingjærde, Ole C; Kristensen, Vessela N (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Background The role played by microRNAs in the deregulation of protein expression in breast cancer is only partly understood. To gain insight, the combined effect of microRNA and mRNA expression on protein ...
Engineering ontology-based access to real-world data sources 
Skjæveland, Martin G; Giese, Martin; Hovland, Dag; Lian, Espen Hallenstvedt; Waaler, Arild (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
The preparation of existing real-world datasets for publication as high-quality semantic web data is a complex task that requires the concerted execution of a variety of processing steps using a range of different tools. ...
Designing for Experienced Simplicity. Why Analytic and Imagined Simplicity Fail in Design of Assistive Technology 
Joshi, Suhas Govind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
This paper uses the design of assistive technology for elderly people as a case for exploring why analytic or imagined simplicity often end up as complicated and incomprehensible in use. Our claim is that building on mastery ...
Complex Systems, Cooperative Work, and Usability 
Pan, Yushan; Komandur, Sashidharan; Finken, Sisse (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Modern operating systems are increasingly complex and require a large number of individual subsystems and procedures; operators also must cooperate to make them function. In this paper the authors consider usability from ...
A Collaborative Change Experiment: Post-experiment Evaluation of Home Telecare for Elderly Home Dwellers 
Joshi, Suhas Govind; Woll, Anita (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
This paper presents results from the final phases of a three-year collaborative change experiment that introduces telecare as a means for delivery of home care services to elderly home dwellers. During the five phases of ...
Mapping analysis in ontology-based data access: Algorithms and complexity 
Lembo, Domenico; Mora, Jose; Rosati, Riccardo; Savo, Domenico Fabio; Thorstensen, Evgenij (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2015)
Ontology-based data access (OBDA) is a recent paradigm for accessing data sources through an ontology that acts as a conceptual, integrated view of the data, and declarative mappings that connect the ontology to the data ...
Colourimetric image analysis as a diagnostic tool in female genital schistosomiasis 
Holmen, Sigve Dhondup; Kjetland, Eyrun Floerecke; Taylor, Myra; Kleppa, Elisabeth; Lillebø, Kristine; Gundersen, Svein Gunnar; Onsrud, Mathias; Albregtsen, Fritz (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Female genital schistosomiasis (FGS) is a highly prevalent waterborne disease in some of the poorest areas of sub-Saharan Africa. Reliable and affordable diagnostics are unavailable. We explored colourimetric image analysis ...
Low Complexity Adaptive Beamforming Applied to Sonar Imaging (Invited) 
Lønmo, Tor Inge Birkenes; Austeng, Andreas; Hansen, Roy Edgar (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Modern sonars provide high-resolution acoustic imaging for a range of applications, including pipeline inspection, harbor surveys and seabed mapping. Central in the signal processing of the sonar data is the beamforming, ...
Swarm v2: highly-scalable and high-resolution amplicon clustering 
Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban; Dunthorn, Micah (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
Previously we presented Swarm v1, a novel and open source amplicon clustering program that produced fine-scale molecular operational taxonomic units (OTUs), free of arbitrary global clustering thresholds and input-order ...
Transcriptome analysis of human OXR1 depleted cells reveals its role in regulating the p53 signaling pathway 
Yang, Mingyi; Lin, Xiaolin; Rowe, Alexander D.; Rognes, Torbjørn; Eide, Lars; Bjørås, Magnar (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2015)
The oxidation resistance gene 1 (OXR1) is crucial for protecting against oxidative stress; however, its molecular function is unknown. We employed RNA sequencing to examine the role of human OXR1 for genome wide transcription ...
Colourful Privacy: Designing Visible Privacy Settings with Teenage Hospital Patients 
van der Velden, Maja; Machniak, Margaret (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2014)
The paper reports from a qualitative study based on the analysis of semi-structured interviews and Participatory Design activities with hospitalised teenagers with chronic health challenges. We studied how teenage patients ...
On parallel local search for permutations 
Riise, Atle; Burke, Edmund K. (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2014)
Nurturing Creativity: Assemblages in HCI Design Practices 
Finken, Sisse; Culén, Alma Leora; Gasparini, Andrea (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
This paper investigates the emergence and nourishment of group creativity within humancomputer interaction design (HCID). HCID practitioners are groomed within a scientific tradition and primarily perceive themselves as ...
Towards a Visual Annotation Tool for End-User Semantic Content Authoring 
Lebesbye, Torgeir; Soylu, Ahmet (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
There is a great amount of data on the Web, but to a large extent it is not published as linked data that computers can consume. Visual annotation tools have a considerable potential to empower end users to contribute their ...
High rate of per oral mecillinam treatment failure in community-acquired urinary tract infections caused by ESBL-producing escherichia coli 
Søraas, Arne Vasli Lund; Sundsfjord, Arnfinn; Jørgensen, Silje Bakken; Liestøl, Knut; Jenum, Pål (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
A population-based study was performed to investigate the efficacy of mecillinam treatment of community-acquired urinary tract infections (CA-UTI) caused by extended-spectrum ß-lactamase (ESBL) producing Escherichia coli. ...
Visual Immediacy for Sense-making in HCI 
Culén, Alma Leora (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
In this paper, the use of concepts such as visual immediacy, metaphor, analogy, blending and abduction is proposed as a way of facilitating visual reasoning in sense-making activities in human-computer interaction (HCI) ...
Re-thinking Participatory Design: What can we learn from Fairphone 
van der Velden, Maja (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2014)
Automatic measurement of aortic annulus diameter in 3-dimensional transoesophageal echocardiography 
Bersvendsen, Jørn; Beitnes, Jan Otto; Urheim, Stig; Aakhus, Svend; Samset, Eigil (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Background Transcatheter aortic valve implantation involves percutaneously implanting a biomechanical aortic valve to treat severe aortic stenosis. In order to select a proper device, precise sizing of the aortic valve ...
Breast cancer stromal elastosis is associated with mammography screening detection, low Ki67 expression and favourable prognosis in a population-based study 
Chen, Ying; Klingen, Tor Audun; Wik, Elisabeth; Aas, Hans; Vigeland, Einar; Liestøl, Knut; Garred, Øystein; Mæhlen, Jan; Akslen, Lars A.; Lømo, Jon (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Background Mammography screen-detected breast cancers have a better prognosis than predicted from established prognostic markers. A search for additional features that are characteristic for these tumours and their prognosis ...
Funky Sole Music: Gait Recognition and Adaptive Mapping 
Nymoen, Kristian; Song, Sichao; Hafting, Yngve; Tørresen, Jim (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2014)
We present Funky Sole Music, a musical interface employing a sole embedded with three force sensitive resistors in combination with a novel algorithm for continuous movement classification. A heuristics-based music engine ...
UIO-Lien: Entailment Recognition using Minimal Recursion Semantics 
Lien, Elisabeth; Kouylekov, Milen (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
In this paper we present our participation in the Semeval 2014 task “Evaluation of compositional distributional semantic models on full sentences through semantic relatedness and textual entailment”. Our results demonstrate ...
Using Minimal Recursion Semantics for Entailment Recognition 
Lien, Elisabeth (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
This paper describes work on using Minimal Recursion Semantics (MRS) representations for the task of recognising textual entailment. I use entailment data from a SemEval-2010 shared task to develop and evaluate an entailment ...
The Norwegian Dependency Treebank 
Solberg, Per Erik; Skjærholt, Arne; Øvrelid, Lilja; Hagen, Kristin; Johannessen, Janne Bondi (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
The Norwegian Dependency Treebank is a new syntactic treebank for Norwegian Bokmål and Nynorsk with manual syntactic and morphological annotation, developed at the National Library of Norway in collaboration with the ...
Systematic assessment of prognostic gene signatures for breast cancer shows distinct influence of time and ER status 
Zhao, Xi; Rødland, Einar A; Sørlie, Therese; Vollan, Hans K M; Russnes, Hege G; Kristensen, Vessela N; Lingjærde, Ole C; Børresen-Dale, Anne-Lise (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
The multitude of molecular analyses in cancer: the opening of Pandora’s box 
Russnes, Hege G; Lønning, Per E; Børresen-Dale, Anne-Lise; Lingjærde, Ole C (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
The availability of large amounts of molecular data of unprecedented depth and width has instigated new paths of interdisciplinary activity in cancer research. Translation of such information to allow its optimal use in ...
Identifying pathogenic processes by integrating microarray data with prior knowledge 
Nygård, Ståle; Reitan, Trond; Clancy, Trevor; Nygaard, Vegard; Bjørnstad, Johannes; Skrbic, Biljana; Tønnessen, Theis; Christensen, Geir; Hovig, Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Background It is of great importance to identify molecular processes and pathways that are involved in disease etiology. Although there has been an extensive use of various high-throughput methods for this ...
Climate and environmental change drives Ixodes ricinus geographical expansion at the northern range margin 
Jore, Solveig; Vanwambeke, Sophie O; Viljugrein, Hildegunn; Isaksen, Ketil; Kristoffersen, Anja B; Woldehiwet, Zerai; Johansen, Bernt; Brun, Edgar; Brun-Hansen, Hege; Westermann, Sebastian; Larsen, Inger-Lise; Ytrehus, Bjørnar; Hofshagen, Merete (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Background Global environmental change is causing spatial and temporal shifts in the distribution of species and the associated diseases of humans, domesticated animals and wildlife. In the on-going debate ...
Performance comparison of four exome capture systems for deep sequencing 
Chilamakuri, Chandra S R; Lorenz, Susanne; Madoui, Mohammed-Amin; Vodák, Daniel; Sun, Jinchang; Hovig, Eivind; Myklebost, Ola; Meza-Zepeda, Leonardo A (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Background Recent developments in deep (next-generation) sequencing technologies are significantly impacting medical research. The global analysis of protein coding regions in genomes of interest by whole ...
Chromatin states reveal functional associations for globally defined transcription start sites in four human cell lines 
Rye, Morten; Sandve, Geir K; Daub, Carsten O; Kawaji, Hideya; Carninci, Piero; Forrest, Alistair R; Drabløs, Finn (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
A 2.8–7.5 pJ/pulse highly-flexible impulse-radio ultra-wideband pulse-generator 
Lee, Kin Keung; Lande, Tor Sverre (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
A low-power on-off-keying impulse-radio (IR) ultra-wideband (UWB) pulse generator (PG) intended for wireless-powered IR-UWB radio applications is presented. The proposed PG has high flexibility, the center frequency, output ...
Scaffolding Sustainability in the Academic HCID Practice 
Culén, Alma Leora (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
This paper is concerned with a sustainable academic human-computer interaction design (HCID) practice. We are interested in examining what such practice could involve, and how to implement changes towards increased ...
Termite retinex: A new implementation based on a colony of intelligent agents 
Simone, Gabriele; Audino, Giuseppe; Farup, Ivar; Albregtsen, Fritz; Rizzi, Alessandro (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
The original presentation of Retinex, a spatial color correction and image enhancement algorithm modeling the human vision system, as proposed by Land and McCann in 1964, uses paths to explore the image in search of a local ...
Emerging ethical considerations from the perspectives of the elderly 
Joshi, Suhas Govind (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
The introduction of assistive technology for elderly no longer able to live independently has brought along a set of new ethical issues that deserves attention. Previous studies on similar topics mostly focus on certain ...
HiBrowse: Multi-purpose statistical analysis of genome-wide chromatin 3D organization 
Paulsen, Jonas; Sandve, Geir Kjetil F.; Gundersen, Sveinung; Lien, Tonje Gulbrandsen; Trengereid, Kai; Hovig, Johannes Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Recently developed methods that couple next-generation sequencing with chromosome conformation capture-based techniques, such as Hi-C and ChIA-PET, allow for characterization of genome-wide chromatin 3D structure. Understanding ...
Ninth International Conference on Culture, Technology, and Communication 2014 
Ess, Charles; van der Velden, Maja; Deyrich, Marie-Christine; Dahan, Michael; Bentman, Mouli; Oyugi, Cecilia; Camara, Souleymane; Abdelnour-Nocera, José; Sugiyama, Satomi; Linke, Christine; Hupont, Isabelle; Barile, Nello; Fornari, Davide; Vandecreek, Drew E.; Schumacker, Jaime; Jonsson, Fatima; Lundmark, Sofia; Machniak, Margaret; Schettino, Patrizia; Stuedahl, Dagny; Lowe, Sarah; Sutherlin, Gwyneth; Brady, Fiona; Dyson, Laurel Evelyn; Fragoso, Suely; Joshi, Suhas Govind; Strano, Michele; Canter, William; Sveningsson, Malin (Book / Bok / PublishedVersion; Peer reviewed, 2014)
Swarm: robust and fast clustering method for amplicon-based studies 
Mahé, Frédéric; Rognes, Torbjørn; Quince, Christopher; de Vargas, Colomban; Dunthorn, Micah (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2014)
Popular de novo amplicon clustering methods suffer from two fundamental flaws: arbitrary global clustering thresholds, and input-order dependency induced by centroid selection. Swarm was developed to address these issues ...
Treelet Probabilities for HPSG Parsing and Error Correction 
Ivanova, Angelina; Van Noord, Gertjan (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2014)
Most state-of-the-art parsers aim to produce an analysis for any input despite errors. However, small grammatical mistakes in a sentence often cause a parser to fail to build a correct syntactic tree. Applications that can ...
PheroMusic: Navigating a Musical Space for Active Music Experiences 
Nymoen, Kristian; Chandra, Arjun; Glette, Kyrre Harald; Tørresen, Jim; Voldsund, Arve; Jensenius, Alexander Refsum (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2014)
We consider the issue of how a flexible musical space can be manipulated by users of an active music system. The musical space is navigated within by selecting transitions between different sections of the space. We take ...
Semantic Technologies for Querying Linguistic Annotations: An Experiment Focusing on Graph-Structured Data 
Kouylekov, Milen; Oepen, Stephan (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2014)
With growing interest in the creation and search of linguistic annotations that form general graphs (in contrast to formally simpler, rooted trees), there also is an increased need for infrastructures that support the ...
Development institutions and technological change – an institutional entrepreneurship perspective through a case study of public health information systems in developing countries 
Sæbø, Johan Ivar; Sahay, Sundeep (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
This paper draws upon an institutional entrepreneurship perspective to analyse the relationship between development and technological change, specifically within the context of public health information systems in developing ...
Cloud Computing for Development – Improving the Health Information System in Ghana 
Adaletey, Denis Leonard; Poppe, Olav; Braa, Jørn (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2013)
The health sector in many developing countries is undergoing restructuring to meet set goals, especially the health related Millennium Development Goals. To be able to monitor the performance of the health sector, an ...
University Library as a Living Lab: Innovating with Students 
Gasparini, Andrea; Culén, Alma Leora (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
Child-to-Child (C2C): Design of Interactive 3D Book Space for Children's Museum 
Culén, Alma Leora; Bratteteig, Tone; Pandey, Sumit; Srivastava, Swati (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2013)
In this paper, we present a Child-to-Child method (C2C) for co-designing with children for younger children. The method is illustrated using a design case, where an interactive space for young children in Children’s Museum ...
Integrating blended-learning for health information systems training in developing countries: Towards a conceptual framework 
Siribaddana, Pandula Anilpriya; Sahay, Sundeep (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
12th International Conference on Social Implications of Computers in Developing Countries, IFIP 9.4 Working group, Jamaica, 2013-05-19 - 2013-05-22.
Performance of sediment transport simulations on NVIDIA’s Kepler architecture 
Su, Huayou; Wu, Nan; Wen, Mei; Zhang, Chunyuan; Cai, Xing (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2013)
Aiming to understand how high-performance CUDA programming can be done for NVIDIA's new Kepler architecture, we have investigated a specific case of simulating sediment transport. The arisen stencil computations have ...
The Challenge of Decentralised Synchronisation in Interactive Music Systems 
Nymoen, Kristian; Chandra, Arjun; Tørresen, Jim (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
Synchronisation is an important part of collaborative music systems, and with such systems implemented on mobile devices, the implementation of algorithms for synchronisation without central control becomes increasingly ...
Handling realistic assumptions in hypothesis testing of 3D co-localization of genomic elements 
Paulsen, Jonas; Lien, Tonje G.; Sandve, Geir Kjetil; Holden, Lars; Borgan, Ørnulf; Glad, Ingrid K.; Hovig, Johannes Eivind (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2013)
The study of chromatin 3D structure has recently gained much focus owing to novel techniques for detecting genome-wide chromatin contacts using next-generation sequencing. A deeper understanding of the architecture of the ...
Model-based Bayesian Reinforcement Learning for Dialogue Management 
Lison, Pierre (Journal article / Tidsskriftartikkel / AcceptedVersion; Peer reviewed, 2013)
Reinforcement learning methods are increasingly used to optimise dialogue policies from experience. Most current techniques are model-free: they directly estimate the utility of various actions, without explicit model of ...
Tiling array study of MNNG treated Escherichia coli reveals a widespread transcriptional response 
Booth, James A.; Thomassen, Gard O Sundby; Rowe, Alexander D.; Weel-Sneve, Ragnhild; Lagesen, Karin; Kristiansen, Knut Ivan; Bjørås, Magnar; Rognes, Torbjørn; Lindvall, Jessica Margareta (Journal article / Tidsskriftartikkel / PublishedVersion; Peer reviewed, 2013)
The alkylating agent N-methyl-N'-nitro-N-nitrosoguanidine (MNNG) is known to trigger the adaptive response by inducing the ada-regulon – consisting of three DNA repair enzymes Ada, AlkB, AlkA and the enigmatic AidB. We ...
Towards large-scale language analysis in the cloud 
Lapponi, Emanuele; Velldal, Erik; Vazov, Nikolay Aleksandrov; Oepen, Stephan (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
This paper documents ongoing work within the Norwegian CLARINO project on building a Language Analysis Portal (LAP). The portal will provide an intuitive and easily accessible web interface to a centralized repository of ...
On Different Approaches to Syntactic Analysis Into Bi-Lexical Dependencies. An Empirical Comparison of Direct, PCFG-Based, and HPSG-Based Parsers 
Ivanova, Angelina; Oepen, Stephan; Dridan, Rebecca; Flickinger, Dan; Øvrelid, Lilja (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2013)
We compare three different approaches to parsing into syntactic, bi-lexical dependencies for English: a ‘direct’ data-driven dependency parser, a statistical phrase structure parser, and a hybrid, ‘deep’ grammar-driven ...
Investigating evolvable hardware classification for the BioSleeve electromyographic interface 
Glette, Kyrre Harald; Kaufmann, Paul; Assad, Christopher; Wolf, Michael (Chapter / Bokkapittel / AcceptedVersion; Peer reviewed, 2013)
We investigate the applicability of an evolvable hardware classifier architecture for electromyography (EMG) data from the BioSleeve wearable human-machine interface, with the goal of having embedded training and classification. ...
HCID: Who is an interaction designer? 
Culén, Alma Leora; Joshi, Suhas Govind; Abdelhakeem, Atif (Chapter / Bokkapittel / PublishedVersion; Peer reviewed, 2013)
The development of technology with all its ubiquity and pervasiveness provides new opportunities and new challenges for the interaction design practitioners, both those coming from the design tradition and computer science ...
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