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2019
1 Efstathiou, Sophia; Nydal, Rune; Lægreid, Astrid; Kuiper, Martin.
Scientific knowledge in the age of computation: Explicated, computable and manageable?. Theoria. An international Journal of Theory, History and Foundations of Science 2019
NTNU Untitled
 
2 Perfetto, Livia; Acencio, Marcio Luis; Bradley, Glyn; Cesareni, Gianni; del Toro, Noemi; Fazekas, David; Hermjakob, Henning; Korcsmaros, Tamas; Kuiper, Martin; Lægreid, Astrid; Lo Surdo, Prisca; Lovering, Ruth C.; Orchard, Sandra; Porras, Pablo; Thomas, Paul; Touré, Vasundra; Zobolas, John; Licata, Luana.
CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination. Bioinformatics 2019
NTNU Untitled
 
3 The Gene Ontology, Consortium; that, includes; Acencio, Marcio Luis; Lægreid, Astrid; Kuiper, Martin; among, others.
The Gene Ontology Resource: 20 years and still GOing strong.. Nucleic Acids Research 2019 (gky1055)
NTNU Untitled
 
2018
4 Acencio, Marcio Luis; Krallinger, Martin; Kuiper, Martin; Lægreid, Astrid.
Mining DbTF-TG causal interactions from biomedical literature. GREEKC CA15205: Ontologies for the Gene Regulation Knowledge Commons, and Database 'FAIRness' Short description:; 2018-10-01 - 2018-10-02
NTNU Untitled
 
5 Niederdorfer, Barbara; Vázquez, Miguel; Thommesen, Liv; Kuiper, Martin; Lægreid, Astrid; Flobak, Åsmund.
Logical model simulations predict drug synergies across different cancer cell lines. ISMB 2018; 2018-07-06 - 2018-07-10
NTNU Untitled
 
6 Nydal, Rune; Lægreid, Astrid; Kuiper, Martin; Gabrielsen, Ane Møller.
Introduction. Visions for Life Science Knowledge Commons. Visions for Life Science Knowledge Commons; 2018-05-23 - 2018-05-24
NTNU Untitled
 
7 Touré, Vasundra; Flobak, Åsmund; Lægreid, Astrid; Kuiper, Martin.
Knowledge management and standard representation of causal statements for systems modeling.. JOBIM 2018; 2018-07-03 - 2018-07-06
NTNU Untitled
 
2017
8 Acencio, Marcio Luis; Lægreid, Astrid.
Representation of sequence-specific DNA binding transcription factors (DbTFs) complexes. Curation workshop on molecular and causal interactions; 2017-12-05 - 2017-12-07
NTNU Untitled
 
9 Acencio, Marcio Luis; Lægreid, Astrid; Kuiper, Martin; Thommesen, Liv; Leitner, Florian; Krallinger, Martin; Lourenço, Analia; Vázquez, Miguel; Valencia, Alfonso.
NTNU DbTF Curation: current status and Mining Transcription Regulation Information from Literature. Short Research Stay at the European Bioinformatics Institute (EBI); 2017-05-08 - 2017-05-10
NTNU Untitled
 
10 Acencio, Marcio Luis; Vázquez, Miguel; Kuiper, Martin; Lægreid, Astrid.
DbTF-TG interactions and regulatory relationships: a survey. Curation workshop on molecular and causal interactions; 2017-12-05 - 2017-12-07
NTNU Untitled
 
11 Flobak, Åsmund; Garcia, Miguel Vazquez; Lægreid, Astrid; Valencia, Alfonso.
CImbinator: a web-based tool for drug synergy analysis in small- and large-scale datasets. Bioinformatics 2017 ;Volum 33.(15) s. 2410-2412
NTNU Untitled
 
12 Touré, Vasundra; Flobak, Åsmund; Lægreid, Astrid; Kuiper, Martin Tremen R..
Extraction and representation of causal statements: Creating a model building resource for Systems Biology. COMBINE 2017; 2017-10-09 - 2017-10-13
NTNU Untitled
 
2016
13 Acencio, Marcio Luis; Lægreid, Astrid; Kuiper, Martin.
Causal statements for Gene Regulation & Signal Transduction: what can be done in PSI-MI. HUPO-PSI meeting 2016; 2016-04-18 - 2016-04-20
NTNU Untitled
 
14 Acencio, Marcio Luis; Lægreid, Astrid; Kuiper, Martin.
Knowledge Commons digitalization - curation. Crossover Seminar; 2016-04-14 - 2016-04-15
NTNU Untitled
 
15 Flobak, Åsmund; Steigedal, Tonje S.; Thommesen, Liv; Kuiper, Martin Tremen R.; Lægreid, Astrid.
Logical models for drug screen prioritization. European Conference on Computational Biology; 2016-09-03 - 2016-09-07
NTNU UiO Untitled
 
16 Lægreid, Astrid.
Why we need the Knowledge Commons. Today's biology is not possible without. Science for the common good – visions of technological opportunities; 2016-06-13 - 2016-06-14
NTNU Untitled
 
17 Nydal, Rune; Lægreid, Astrid; Kuiper, Martin.
Curation strategeis of NTNU project. Workshop upstart crossover at EBI; 2016-04-22 - 2016-04-23
NTNU Untitled
 
18 Tripathi, Sushil; Vercruysse, Steven; Chawla, Konika; Christie, Karen R.; Blake, Judith A; Huntley, Rachael P.; Orchard, Sandra; Hermjakob, Henning; Thommesen, Liv; Lægreid, Astrid; Kuiper, Martin.
Gene regulation knowledge commons: community action takes care of DNA binding transcription factors. Database: The Journal of Biological Databases and Curation 2016 s. -
NTNU Untitled
 
2015
19 Flobak, Åsmund; Baudot, Anaïs; Remy, Elisabeth; Thommesen, Liv; Thieffry, Denis; Kuiper, Martin; Lægreid, Astrid.
Discovery of Drug Synergies in Gastric Cancer Cells Predicted by Logical Modeling. PLoS Computational Biology 2015 ;Volum 11.(8)
NTNU Untitled
 
20 Lægreid, Astrid; Kuiper, Martin.
Health and the information commons.
NTNU Untitled
 
21 Tripathi, Sushil; Flobak, Åsmund; Chawla, Konika; Baudot, Anaïs; Bruland, Torunn; Thommesen, Liv; Kuiper, Martin Tremen R.; Lægreid, Astrid.
The gastrin and cholecystokinin receptors mediated signaling network: a scaffold for data analysis and new hypotheses on regulatory mechanisms. BMC Systems Biology 2015 ;Volum 9.(40) s. -
NTNU Untitled
 
2014
22 Flobak, Åsmund; Baudot, Anaïs; Remy, Elisabeth; Thommesen, Liv; Thieffry, Denis; Kuiper, Martin; Lægreid, Astrid.
Drug synergies in a gastric cancer cell line discovered by signal transduction modeling. Virtual Physiological Human Conference 2014; 2014-09-09 - 2014-09-12
NTNU Untitled
 
23 Kuiper, Martin; Lægreid, Astrid.
The GRECO initiative: taking care of Gene Regulation knowledge. Virtual Physiological Human Conference 2014; 2014-09-09 - 2014-09-12
NTNU Untitled
 
24 Kuiper, Martin; Mironov, Vladimir; Venkatesan, Aravind; Tripathi, Sushil; Blondé, Ward; Sanz de Galdeano, Alejandro; Lægreid, Astrid.
The gene expression knowledge base. Virtual Physiological Human Conference 2014; 2014-09-09 - 2014-09-12
NTNU Untitled
 
25 Lægreid, Astrid; Kuiper, Martin.
Å ta seg av kunnskap.
NTNU Untitled
 
26 Nydal, Rune; Efstathiou, Sophia; Lægreid, Astrid; Kuiper, Martin.
Setting the stage: Tragedy of the knowledge commons. Knowledge management and the futures of our society, a Virtual Physiological Human 2014 Satellite Workshop; 2014-09-08 - 2014-09-09
NTNU Untitled
 
27 Orchard, Sandra; Ammari, M; Aranda, B; Breuza, L; Briganti, L; Broackes-Carter, F; Campbell, NH; Chavali, G; Chen, C; Del-Toro, N; Duesbury, M; Dumousseau, M; Galeota, E; Hinz, U; Iannuccelli, M; Jagannathan, S; Jimenez, R.; Khadake, J; Lægreid, Astrid; Licata, L; Lovering, RC; Meldal, B; Melidoni, AN; Milagros, M; Peluso, D; Perfetto, Livia; Porras, P; Raghunath, A; Ricard-Blum, S; Roechert, B; Stutz, A; Tognolli, M; Van Roey, K; Cesareni, G; Hermjakob, H.
The MIntAct project - IntAct as a common curation platform for 11 molecular interaction databases. Nucleic Acids Research 2014 ;Volum 42.(1) s. D358-D363
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28 Selvik, Linn-Karina M.; Rao, Shalini; Steigedal, Tonje; Haltbakk, Ildri; Misund, Kristine; Bruland, Torunn; Prestvik, Wenche S; Lægreid, Astrid; Thommesen, Liv.
Salt-inducible kinase 1 (SIK1) is induced by gastrin and inhibits migration of gastric adenocarcinoma cells. PLOS ONE 2014 ;Volum 9.(11) s. -
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29 Vange, Pål; Beisvag, Vidar; Flatberg, Arnar; Afroz, Wahida; Nordrum, Ivar Skjåk; Sørdal, Øystein Finset; Qvigstad, Gunnar; Thommesen, Liv; Lægreid, Astrid; Sandvik, Arne Kristian; Bruland, Torunn; Bakke, Ingunn.
Molecular mechanisms of cellular stress responses in gastric cancer. Digestive Disease Week 2014; 2014-05-03 - 2014-05-06
NTNU STO Untitled
 
30 Venkatesan, Aravind; Tripathi, Sushil; Sanz de Galdeano, Alejandro; Blondé, Ward; Lægreid, Astrid; Mironov, Vladimir; Kuiper, Martin.
Finding gene regulatory network candidates using the gene expression knowledge base. BMC Bioinformatics 2014 ;Volum 15.(1)
NTNU Untitled
 
2013
31 Chawla, Konika; Tripathi, Sushil; Thommesen, Liv; Lægreid, Astrid; Kuiper, Martin.
TFcheckpoint: a curated compendium of specific DNA-binding RNA polymerase II transcription factors. Bioinformatics 2013 ;Volum 29.(19) s. 2519-2520
NTNU Untitled
 
32 Feuerherm, Astrid Jullumstrø; Jørgensen, Katarina Mariann; Sommerfelt, Randi Magnus; Eidem, Live Egeland; Lægreid, Astrid; Johansen, Berit.
Platelet-activating factor induces proliferation in differentiated keratinocytes. Molecular and Cellular Biochemistry 2013 ;Volum 384.(1-2) s. 83-94
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33 Misund, Kristine; Selvik, Linn-Karina M.; Rao, Shalini; Nørsett, Kristin Gabestad; Bakke, Ingunn; Sandvik, Arne; Lægreid, Astrid; Bruland, Torunn; Prestvik, Wenche S; Thommesen, Liv.
NR4A2 is regulated by Gastrin and involved in gastrin-induced migration and invasion of gastric adenocarcinoma cells. PLOS ONE 2013 ;Volum 8.(9) Suppl. e76234 s. -
NTNU STO Untitled
 
34 Rao, Shalini; Selvik, Linn-Karina M.; Nørsett, Kristin Gabestad; Bakke, Ingunn; Misund, Kristine; Bruland, Torunn; Wenche S, Prestvik; Lægreid, Astrid; Thommesen, Liv.
NR4A2 is regulated by gastrin and influences cellular responses in gastric adenocarcinoma cells. Nuclear receptors: Linking molecules, genomes & physiology; 2013-09-06 - 2013-09-10
NTNU Untitled
 
35 Rao, Shalini; Thommesen, Liv; Nørsett, Kristin; Bakke, Ingunn; Misund, Kristine; Bruland, Torunn; Prestvik, Wenche S; Lægreid, Astrid.
Nr4A2 is regulated by gastrin and influences cellular responses in gastric adenocarcinoma cells. Kontaktmøte Norsk Biokjemisk Selskap; 2013-01-17 - 2013-01-20
NTNU Untitled
 
36 Selvik, Linn-Karina M.; Fjeldbo, Christina Sæten; Flatberg, Arnar; Steigedal, Tonje; Misund, Kristine; Anderssen, Endre; Doseth, Berit; Langaas, Mette; Tripathi, Sushil; Beisvag, Vidar; Lægreid, Astrid; Thommesen, Liv; Bruland, Torunn.
The duration of gastrin treatment affects global gene expression and molecular responses involved in ER stress and anti-apoptosis. BMC Genomics 2013 ;Volum 14. s. -
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37 Steigedal, Tonje; Prestvik, Wenche S; Selvik, Linn-Karina M.; Fjeldbo, Christina Sæten; Bruland, Torunn; Lægreid, Astrid; Thommesen, Liv.
Gastrin-induced proliferation involves MEK partner 1 (MP1). In vitro Cellular & Developmental Biology-Animal 2013 ;Volum 49.(3) s. 162-169
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38 Tripathi, Sushil; Christie, KR; Balakrishnan, Ravin; Huntley, R; Hill, DP; Thommesen, Liv; Blake, JA; Kuiper, Martin; Lægreid, Astrid.
Gene Ontology annotation of sequence-specific DNA binding transcription factors: setting the stage for a large-scale curation effort. Database: The Journal of Biological Databases and Curation 2013 s. -
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2012
39 Efstathiou, Sophia; Carusi, Annamaria; Kuiper, Martin; Lægreid, Astrid; Nydal, Rune.
Research Systems for Systems Biology. European Meetings on Cybernetics and Systems Research; 2012-04-10 - 2012-04-13
NTNU Untitled
 
40 Efstathiou, Sophia; Nydal, Rune; Carusi, Annamaria; Kuiper, Martin; Lægreid, Astrid.
Well-constructed systems biology: Integrating socio-humanist research. European Meetings on Cybernetics and Systems Research; 2012-04-12 - 2012-04-14
NTNU Untitled
 
41 Efstathiou, Sophia; Nydal, Rune; Kuiper, Martin; Lægreid, Astrid; Carusi, Annamaria.
When ‘Knowledge’ Becomes Something to Manage. Society for the Study of Nanoscience and Emerging Technologies; 2012-10-23 - 2012-10-25
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42 Fjeldbo, Christina Sæten; Bakke, Ingunn; Erlandsen, Sten Even; Holmseth, Jannicke; Lægreid, Astrid; Sandvik, Arne Kristian; Thommesen, Liv; Bruland, Torunn.
Gastrin upregulates the pro-survival factor secretory clusterin (sCLU) in adenocarcinoma cells and in oxyntic mucosa of hypergastrinemic rats. American Journal of Physiology - Gastrointestinal and Liver Physiology 2012 ;Volum 302.(1) s. G21-G33
NTNU STO Untitled
 
43 Nydal, Rune; Efstathiou, Sophia; Lægreid, Astrid.
Crossover Research: Exploring a Collaborative Mode of Integration. I: Little by Little. Expansions of Nanoscience and Emerging Technologies. IOS Press 2012 ISBN 978-1-61499-148-9. s. 181-194
NTNU Untitled
 
44 Nydal, Rune; Efstathiou, Sophia; Lægreid, Astrid.
Widening the circles of collaboration - Integrating philosophy in systems biology. Fourth Annual converence of the society for the study of nanoscience and emerging technologies; 2012-10-22 - 2012-10-25
NTNU Untitled
 
2011
45 Nydal, Rune; Efstathiou, Sophia; Lægreid, Astrid.
Well-constructed systems biology. Integrating Socio-humanist Research. S-Net, Third annual meeting; 2011-11-07 - 2011-11-10
NTNU Untitled
 
46 Tripathi, Sushil; Venkatesan, Aravind; Egaña, Mikel; Zavareh, Zahra; Chawla, Konika; Mironov, Vladimir; Thommesen, Liv; Bruland, Torunn; Kuiper, Martin; Lægreid, Astrid.
Automated Assessment of High Throughput Hypotheses on Gene Regulatory Mechanisms Involved in the Gastrin Response. Bio-Ontologies 2011; 2011-07-15 - 2011-07-16
NTNU Untitled
 
2010
47 Bruland, Torunn; Anderssen, Endre; Misund, Kristine; Fjeldbo, Christina Sæten; Flatberg, Arnar; Selvik, Linn-Karina M.; Beisvag, Vidar; Sandvik, Arne Kristian; Lægreid, Astrid; Thommesen, Liv.
Exploring signal-induced cellular regulatory subnetworks by use of partial least square regression (PLSR) multidimensional analysis of gene expression time series data. 13th Annual MGED meeting , Boston, Massachusetts, USA; 2010-07-13 - 2010-07-15
NTNU Untitled
 
48 Fjeldbo, Christina Sæten; Misund, Kristine; Günther, Clara-Cecilie; Langaas, Mette; Steigedal, Tonje; Thommesen, Liv; Lægreid, Astrid; Bruland, Torunn.
Functional studies on RNA-transfected cell microarrays. Methods in molecular biology 2010 ;Volum 629. s. 175-191
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49 Jørgensen, Katarina; Felberg, Hanne Solvang; Berge, Rolf K.; Lægreid, Astrid; Johansen, Berit.
Platelet activating factor stimulates arachidonic acid release in differentiated keratinocytes via arachidonyl non-selective phospholipase A(2). Archives of Dermatological Research 2010 ;Volum 302.(3) s. 221-227
HAUKELAND NTNU Untitled
 
50 Tripathi, Sushil; Thommesen, Liv; Skjøndal-Bar, Nadav; Almaas, Eivind; Kuiper, Martin; Lægreid, Astrid.
Modelling the gastrin signalling pathways. 11th International Conference on Systems Biology; 2010-10-10 - 2010-10-16
NTNU Untitled
 
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