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Eivind Almaas

Eivind Almaas

Professor
Department of Biotechnology and Food Science
Faculty of Natural Sciences

eivind.almaas@ntnu.no
+4773597860 Kjemi 3, rm. 125, Gløshaugen
ResearchGate Scopus Google Scholar Almaas Lab page K.G. Jebsen Center for Genetic Epidemiology
About Publications Teaching Media

About

My interest is in basic research in systems biology, focusing on complex biological networks, epidemiological spread, and cellular metabolism. In my group, we make use of both computational and experimental approaches. We also engage in applied research, specifically to identify alternatives to antibiotics through experimental bacteriophage evolution, and in the computational/ experimental analysis of interactions between yeast and nutrients in beer brewing. More information is available at my research group pages.

Publications

  • Chronological
  • By category
  • See all publications in Cristin

2023

  • Karlsen, Emil; Gylseth, Marianne; Schulz, Christian; Almaas, Eivind. (2023) A study of a diauxic growth experiment using an expanded dynamic flux balance framework. PLOS ONE.
    Academic article

2022

  • Jouhten, Paula; Konstantinidis, Dimitrios; Pereira, Filipa; Andrejev, Sergej; Grkovska, Kristina; Castillo, Sandra; Ghiachi, Payam; Beltran, Gemma; Almaas, Eivind; Mas, Albert; Warringer, Jonas; Gonzalez, Ramon; Morales, Pilar; Patil, Kiran R.. (2022) Predictive evolution of metabolic phenotypes using model-designed environments. Molecular Systems Biology. volum 18 (10).
    Academic article
  • Pettersen, Jakob Peder; Almaas, Eivind. (2022) csdR, an R package for differential co-expression analysis. BMC Bioinformatics. volum 23.
    Academic article
  • Simensen, Vetle; Schulz, Christian; Karlsen, Emil; Bråtelund, Signe; Burgos, Idun Maria Tokvam; Thorfinnsdottir, Lilja Brekke; Garcia Calvo, Laura; Bruheim, Per; Almaas, Eivind. (2022) Experimental determination of Escherichia coli biomass composition for constraint-based metabolic modeling. PLOS ONE. volum 17 (1).
    Academic article
  • Simensen, Vetle; Seif, Yara; Almaas, Eivind. (2022) Phenotypic response of yeast metabolic network to availability of proteinogenic amino acids. Frontiers in Molecular Biosciences. volum 9.
    Academic article
  • Voigt, Andre; Omholt, Stig William; Almaas, Eivind. (2022) Comparing the impact of vaccination strategies on the spread of COVID-19, including a novel household-targeted vaccination strategy. PLOS ONE. volum 17 (2).
    Academic article
  • Wolowczyk, Camilla; Neckmann, Ulrike; Aure, Miriam Ragle; Hall, Martina; Johannessen, Bjarne; Zhao, Sen; Skotheim, Rolf I.; Andersen, Sonja Benedikte; Zwiggelaar, Rosalie Theda Margien; Steigedal, Tonje S.; Lingjærde, Ole Christian; Sahlberg, Kristine Kleivi; Almaas, Eivind; Bjørkøy, Geir. (2022) NRF2 drives an oxidative stress response predictive of breast cancer. Free Radical Biology & Medicine. volum 184.
    Academic article

2021

  • Bernstein, David B.; Sulheim, Snorre; Almaas, Eivind; Segrè, Daniel. (2021) Addressing uncertainty in genome-scale metabolic model reconstruction and analysis. Genome Biology. volum 22.
    Scientific translation/review
  • Joudeh, Nadeem; Saragliadis, Athanasios; Schulz, Christian; Voigt, Andre; Almaas, Eivind; Linke, Dirk. (2021) Transcriptomic Response Analysis of Escherichia coli to Palladium Stress. Frontiers in Microbiology. volum 12.
    Academic article
  • Ofaim, Shany; Sulheim, Snorre; Almaas, Eivind; Sher, Daniel; Segrè, Daniel. (2021) Dynamic Allocation of Carbon Storage and Nutrient-Dependent Exudation in a Revised Genome-Scale Model of Prochlorococcus. Frontiers in Genetics. volum 12.
    Academic article
  • Pettersen, Jakob Peder; Gundersen, Madeleine S.; Almaas, Eivind. (2021) Robust bacterial co-occurence community structures are independent of r- and K-selection history. Scientific Reports. volum 11.
    Academic article
  • Schulz, Christian; Kumelj, Tjasa; Karlsen, Emil; Almaas, Eivind. (2021) Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition. PLoS Computational Biology. volum 17 (5).
    Academic article
  • Simensen, Vetle; Voigt, Andre; Almaas, Eivind. (2021) High‐quality genome‐scale metabolic model of Aurantiochytrium sp. T66. Biotechnology and Bioengineering. volum 118.
    Academic article
  • Sulheim, Snorre; Fossheim, Fredrik A.; Wentzel, Alexander; Almaas, Eivind. (2021) Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters. BMC Bioinformatics. volum 22.
    Academic article
  • Sulheim, Snorre; Fossheim, Fredrik A.; Wentzel, Alexander; Almaas, Eivind. (2021) Correction to: Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters (BMC Bioinformatics, (2021), 22, 1, (81), 10.1186/s12859-021-03985-0). BMC Bioinformatics. volum 22 (1).
    Errata
  • Voigt, Andre; Almaas, Eivind. (2021) Vaksinering av voksne er ikke nok. nrk.no/ytring.
    Chronicle
  • Voigt, Andre; Almaas, Eivind; Omholt, Stig William. (2021) Med smartere vaksinestrategi kan vi åpne Norge raskere – prioriter store husholdninger. Dagens næringsliv.
    Chronicle
  • Voigt, Andre; Martyushenko, Nikolay; Karlsen, Emil; Hall, Martina; Nyhamar, Kristen; Omholt, Stig William; Almaas, Eivind. (2021) Containing pandemics through targeted testing of households. BMC Infectious Diseases. volum 21.
    Academic article
  • Voigt, Andre; Martyushenko, Nikolay; Karlsen, Emil; Hall, Martina; Nyhamar, Kristen; Omholt, Stig William; Almaas, Eivind. (2021) Correction to: Containing pandemics through targeted testing of households (BMC Infectious Diseases, (2021), 21, 1, (548), 10.1186/s12879-021-06256-8). BMC Infectious Diseases. volum 21 (1).
    Errata

2020

  • Gysi, Deisy Morselli; de Miranda Fragoso, Tiago; Zebardast, Fatemeh; Bertoli, Wesley; Busskamp, Volker; Almaas, Eivind; Nowick, Katja. (2020) Whole transcriptomic network analysis using Co-expression Differential Network Analysis (CoDiNA). PLOS ONE. volum 15 (10).
    Academic article
  • Hall, Martina; Kültz, Dietmar; Almaas, Eivind. (2020) Identification of key proteins involved in stickleback environmental adaptation with system-level analysis. Physiological Genomics. volum 52 (11).
    Academic article
  • Omholt, Stig William; Almaas, Eivind; Voigt, Andre; Hovd, Morten; Fossen, Thor Inge; Steinsland, Ingelin. (2020) Derfor bør norske myndigheter endre sin teststrategi. Gemini.
    Chronicle
  • Omholt, Stig William; Almaas, Eivind; Voigt, Andre; Hovd, Morten; Fossen, Thor Inge; Steinsland, Ingelin. (2020) Omfattende og rettet testing for covid-19 er en billig, lite inngripende og effektiv intervensjonsstrategi. Aftenposten (morgenutg. : trykt utg.).
    Chronicle
  • Røkke, Gunvor Bjerkelund; Hohmann-Marriott, Martin Frank; Almaas, Eivind. (2020) An adjustable algal chloroplast plug-and-play model for genome-scale metabolic models. PLOS ONE. volum 15 (2).
    Academic article
  • Schulz, Christian; Almaas, Eivind. (2020) Genome-scale reconstructions to assess metabolic phylogeny and organism clustering. PLOS ONE.
    Academic article
  • Sulheim, Snorre; Kumelj, Tjasa; van Dissel, Dino; Salehzadeh-Yazdi, Ali; Du, Chao; Van Wezel, Gilles P.; Nieselt, Kay; Almaas, Eivind; Wentzel, Alexander; Kerkhoven, Eduard J. (2020) Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production. iScience. volum 23 (9).
    Academic article

2019

  • Kumelj, Tjasa; Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind. (2019) Predicting strain engineering strategies using iKS1317: a genome-scale metabolic model of Streptomyces coelicolor. Biotechnology Journal.
    Academic article
  • Martyushenko, Nikolay; Almaas, Eivind. (2019) ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models. Bioinformatics.
    Academic article
  • Martyushenko, Nikolay; Almaas, Eivind. (2019) ModelExplorer - software for visual inspection and inconsistency correction of genome-scale metabolic reconstructions. BMC Bioinformatics. volum 20.
    Academic article
  • Neckmann, Ulrike; Wolowczyk, Camilla; Hall, Martina; Almaas, Eivind; Ren, Jiang; Zhao, Sen; Johannessen, Bjarne; Skotheim, Rolf I.; Bjørkøy, Geir; Dijke, Peter Ten; Holien, Toril. (2019) GREM1 is associated with metastasis and predicts poor prognosis in ER-negative breast cancer patients. Cell Communication and Signaling. volum 17.
    Academic article
  • Voigt, Andre; Almaas, Eivind. (2019) Assessment of weighted topological overlap (wTO) to improve fidelity of gene co-expression networks. BMC Bioinformatics. volum 20 (58).
    Academic article

2018

  • Gysi, Deisy Morselli; Voigt, Andre; Fragoso, Tiago de Miranda; Almaas, Eivind; Nowick, Katja. (2018) wTO: An R package for computing weighted topological overlap and a consensus network with integrated visualization tool. BMC Bioinformatics. volum 19 (392).
    Academic article
  • Karlsen, Emil; Schulz, Christian; Almaas, Eivind. (2018) Automated generation of genome-scale metabolic draft reconstructions based on KEGG. BMC Bioinformatics. volum 19 (467).
    Academic article
  • Olaisen, Camilla; Kvitvang, Hans Fredrik Nyvold; Lee, Sungmin; Almaas, Eivind; Bruheim, Per; Drabløs, Finn; Otterlei, Marit. (2018) The role of PCNA as a scaffold protein in cellular signaling is functionally conserved between yeast and humans. FEBS Open Bio. volum 8 (7).
    Academic article

2017

  • Eidsaa, Marius; Stubbs, Lisa; Almaas, Eivind. (2017) Comparative analysis of weighted gene co-expression networks in human and mouse. PLOS ONE. volum 12 (11).
    Academic article
  • MacGillivray, Michael; Ko, Amy; Gruber, Emily; Sawyer, Miranda; Almaas, Eivind; Holder, Allen. (2017) Robust analysis of fluxes in genome-scale metabolic pathways. Scientific Reports. volum 7 (1).
    Academic article
  • Voigt, Andre; Nowick, Katja; Almaas, Eivind. (2017) A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma. PLoS Computational Biology. volum 13 (9).
    Academic article

2016

  • Cvijovic, Marija; Höfer, Thomas; Acimovic, Jure; Alberghina, Lilia; Almaas, Eivind; Besozzi, Daniela; Blomberg, Anders; Bretschneider, Till; Cascante, Marta; Collin, Olivier; de Atauri, Pedro; Depner, Cornelia; Dickinson, Robert; Dobrzynski, Maciej; Fleck, Christian; Garcia-Ojalvo, Jordi; Gonze, Didier; Hahn, Jens; Hess, Heide Marie; Hollmann, Susanne; Krantz, Marcus; Kummer, Ursula; Lundh, torbjorn; Martial, Gifta; Martins dos Santos, Vitor; Mauer-Oberthur, Angela; Regierer, Babette; Skene, Barbara; Stalidzans, Egils; Stelling, Jorg; Teusink, Bas; Workman, Christopher T.; Hohmann, Stefan. (2016) Strategies for structuring interdisciplinary education in Systems Biology: an European perspective. npj Systems Biology and Applications. volum 2.
    Academic article
  • Eidsaa, Marius; Almaas, Eivind. (2016) Investigating the relationship between k-core and s-core network decompositions. Physica A: Statistical Mechanics and its Applications. volum 449.
    Academic article
  • Kültz, Dietmar; Li, Johnathon; Paguio, Darlene; Pham, Tuan; Eidsaa, Marius; Almaas, Eivind. (2016) Population-specific renal proteomes of marine and freshwater three-spined sticklebacks. Journal of Proteomics. volum 135.
    Academic article
  • Maleki, Susan; Almaas, Eivind; Zotchev, Sergey; Valla, Svein; Ertesvåg, Helga. (2016) Alginate Biosynthesis Factories in Pseudomonas fluorescens : Localization and Correlation with Alginate Production Level. Applied and Environmental Microbiology. volum 82 (4).
    Academic article
  • Martyushenko, Nikolay; Johansen, Sigurd Hagen; Ghim, Cheol-Min; Almaas, Eivind. (2016) Hypothetical biomolecular probe based on a genetic switch with tunable symmetry and stability. BMC Systems Biology. volum 10 (39).
    Academic article

2015

  • Almaas, Eivind; Brautaset, Trygve. (2015) Syntetisk biologi. Mendels arv - Genetikkens æra.
    publications.POPVIT_KAPITTEL
  • Ebrahim, Ali; Almaas, Eivind; Bauer, Eugen; Bordbar, Aarash; Burgard, Anthony P.; Chang, Roger L.; Dräger, Andreas; Famili, Iman; Feist, Adam M.; Fleming, Ronan M.T.; Fong, Stephen S.; Hatzimanikatis, Vassily; Holder, Allen; Hucka, Michael; Hyduke, Daniel; Jamshidi, Neema; Lee, Sang Yup; Le Novère, Nicolas; Lerman, Joshua A.; Lewis, Nathan E.; Ma, Ding; Mahadevan, Radhakrishnan; Maranas, Costas; Nagarajan, Harish; Navid, Ali; Nielsen, Jens; Nielsen, Lars K.; Nogales, Juan; Noronha, Alberto; Pal, Csaba; Palsson, Bernhard O.; Papin, Jason A.; Patil, Kiran R.; Price, Nathan D.; Reed, Jennifer L.; Saunders, Michael; Senger, Ryan S.; Sonnenschein, Nikolaus; Sun, Yuekai; Thiele, Ines. (2015) Do genome-scale models need exact solvers or clearer standards?. Molecular Systems Biology. volum 11:831 (10).
    Letter to the editor

2014

  • Lale, Rahmi; Drejer, Eivind Bøe; Hesthammer, Ronja; Omtvedt, Line; Lamb, Jacob Joseph; Røynestad, Pål; Augestad, Elias; Marstrander Reehorst, Camilla; Almaas, Eivind; Hohmann-Marriott, Martin Frank. (2014) Competing in Synthetic biology.
    Web pages (information material)
  • Lale, Rahmi; Drejer, Eivind Bøe; Hesthammer, Ronja; Omtvedt, Line; Lamb, Jacob Joseph; Røynestad, Pål; Augestad, Elias; Marstrander Reehorst, Camilla; Almaas, Eivind; Hohmann-Marriott, Martin Frank. (2014) Only two days away from the competition.
    Web pages (information material)
  • Lale, Rahmi; Drejer, Eivind Bøe; Hesthammer, Ronja; Omtvedt, Line; Lamb, Jacob Joseph; Røynestad, Pål; Augestad, Elias; Reehorst, Camilla; Almaas, Eivind; Hohmann-Marriott, Martin Frank. (2014) We won the gold medal at the iGEM competiton.
    Web pages (information material)

2013

  • Almaas, Eivind; Brevik, Iver Håkon. (2013) Possible sorting mechanism for microparticles in an evanescent field. Physical Review A. Atomic, Molecular, and Optical Physics (PRA). volum 87.
    Academic article
  • Eidsaa, Marius; Almaas, Eivind. (2013) s-core network decomposition: A generalization of k-core analysis to weighted networks. Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. volum 88.
    Academic article
  • Kucharova, Veronika; Aakvik, Trine; Almaas, Eivind; Naas, Adrian Ertsås; Brautaset, Trygve; Valla, Svein. (2013) Non-Invasive Analysis of Recombinant mRNA Stability in Escherichia coli by a Combination of Transcriptional Inducer Wash-Out and qRT-PCR. PLOS ONE. volum 8 (6).
    Academic article

2012

  • Almaas, Eivind; Bruheim, Per; Lale, Rahmi; Valla, Svein. (2012) Dynamics and robustness of metabolic networks: A systems biology review of Escherichia coli metabolism. Systems Microbiology - Current Topics and Applications.
    Academic chapter/article
  • Navid, Ali; Almaas, Eivind. (2012) Genome-level transcription data of Yersinia pestis analyzed with a New metabolic constraint-based approach. BMC Systems Biology. volum 6 (150).
    Academic article
  • Navid, Ali; Almaas, Eivind. (2012) Yersinia pestis Metabolic Network. Yersinia : Systems biology and control.
    Academic chapter/article
  • Zavareh, Zahra; Almaas, Eivind. (2012) Complex Network Analysis in Microbial Systems: Theory and Examples. Microbial Systems Biology: Methods and Protocols.
    Academic chapter/article

2010

  • Almaas, Eivind. (2010) Evolution of metabolic networks. Evolutionary genomics and systems biology.
    Academic chapter/article
  • Almaas, Eivind. (2010) Sjimpansens gener - og våre. Gemini.
    publications.INTERVJUSKRIFTL
  • Almaas, Eivind. (2010) SÅ lite skiller oss fra sjimpansene. VG : Verdens gang.
    publications.INTERVJUSKRIFTL

2009

  • Ghim, CM; Almaas, Eivind. (2009) Two-Component Genetic Switch as a Synthetic Module with Tunable Stability. Physical Review Letters. volum 103 (2).
    Academic article
  • Nowicka, Katja; Gernata, Tim; Almaas, Eivind; Stubbs, Lisa. (2009) Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain. Proceedings of the National Academy of Sciences of the United States of America. volum 106 (52).
    Academic article

Scientific articles

  • Karlsen, Emil; Gylseth, Marianne; Schulz, Christian; Almaas, Eivind. (2023) A study of a diauxic growth experiment using an expanded dynamic flux balance framework. PLOS ONE.
    Academic article
  • Jouhten, Paula; Konstantinidis, Dimitrios; Pereira, Filipa; Andrejev, Sergej; Grkovska, Kristina; Castillo, Sandra; Ghiachi, Payam; Beltran, Gemma; Almaas, Eivind; Mas, Albert; Warringer, Jonas; Gonzalez, Ramon; Morales, Pilar; Patil, Kiran R.. (2022) Predictive evolution of metabolic phenotypes using model-designed environments. Molecular Systems Biology. volum 18 (10).
    Academic article
  • Pettersen, Jakob Peder; Almaas, Eivind. (2022) csdR, an R package for differential co-expression analysis. BMC Bioinformatics. volum 23.
    Academic article
  • Simensen, Vetle; Schulz, Christian; Karlsen, Emil; Bråtelund, Signe; Burgos, Idun Maria Tokvam; Thorfinnsdottir, Lilja Brekke; Garcia Calvo, Laura; Bruheim, Per; Almaas, Eivind. (2022) Experimental determination of Escherichia coli biomass composition for constraint-based metabolic modeling. PLOS ONE. volum 17 (1).
    Academic article
  • Simensen, Vetle; Seif, Yara; Almaas, Eivind. (2022) Phenotypic response of yeast metabolic network to availability of proteinogenic amino acids. Frontiers in Molecular Biosciences. volum 9.
    Academic article
  • Voigt, Andre; Omholt, Stig William; Almaas, Eivind. (2022) Comparing the impact of vaccination strategies on the spread of COVID-19, including a novel household-targeted vaccination strategy. PLOS ONE. volum 17 (2).
    Academic article
  • Wolowczyk, Camilla; Neckmann, Ulrike; Aure, Miriam Ragle; Hall, Martina; Johannessen, Bjarne; Zhao, Sen; Skotheim, Rolf I.; Andersen, Sonja Benedikte; Zwiggelaar, Rosalie Theda Margien; Steigedal, Tonje S.; Lingjærde, Ole Christian; Sahlberg, Kristine Kleivi; Almaas, Eivind; Bjørkøy, Geir. (2022) NRF2 drives an oxidative stress response predictive of breast cancer. Free Radical Biology & Medicine. volum 184.
    Academic article
  • Joudeh, Nadeem; Saragliadis, Athanasios; Schulz, Christian; Voigt, Andre; Almaas, Eivind; Linke, Dirk. (2021) Transcriptomic Response Analysis of Escherichia coli to Palladium Stress. Frontiers in Microbiology. volum 12.
    Academic article
  • Ofaim, Shany; Sulheim, Snorre; Almaas, Eivind; Sher, Daniel; Segrè, Daniel. (2021) Dynamic Allocation of Carbon Storage and Nutrient-Dependent Exudation in a Revised Genome-Scale Model of Prochlorococcus. Frontiers in Genetics. volum 12.
    Academic article
  • Pettersen, Jakob Peder; Gundersen, Madeleine S.; Almaas, Eivind. (2021) Robust bacterial co-occurence community structures are independent of r- and K-selection history. Scientific Reports. volum 11.
    Academic article
  • Schulz, Christian; Kumelj, Tjasa; Karlsen, Emil; Almaas, Eivind. (2021) Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition. PLoS Computational Biology. volum 17 (5).
    Academic article
  • Simensen, Vetle; Voigt, Andre; Almaas, Eivind. (2021) High‐quality genome‐scale metabolic model of Aurantiochytrium sp. T66. Biotechnology and Bioengineering. volum 118.
    Academic article
  • Sulheim, Snorre; Fossheim, Fredrik A.; Wentzel, Alexander; Almaas, Eivind. (2021) Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters. BMC Bioinformatics. volum 22.
    Academic article
  • Voigt, Andre; Martyushenko, Nikolay; Karlsen, Emil; Hall, Martina; Nyhamar, Kristen; Omholt, Stig William; Almaas, Eivind. (2021) Containing pandemics through targeted testing of households. BMC Infectious Diseases. volum 21.
    Academic article
  • Gysi, Deisy Morselli; de Miranda Fragoso, Tiago; Zebardast, Fatemeh; Bertoli, Wesley; Busskamp, Volker; Almaas, Eivind; Nowick, Katja. (2020) Whole transcriptomic network analysis using Co-expression Differential Network Analysis (CoDiNA). PLOS ONE. volum 15 (10).
    Academic article
  • Hall, Martina; Kültz, Dietmar; Almaas, Eivind. (2020) Identification of key proteins involved in stickleback environmental adaptation with system-level analysis. Physiological Genomics. volum 52 (11).
    Academic article
  • Røkke, Gunvor Bjerkelund; Hohmann-Marriott, Martin Frank; Almaas, Eivind. (2020) An adjustable algal chloroplast plug-and-play model for genome-scale metabolic models. PLOS ONE. volum 15 (2).
    Academic article
  • Schulz, Christian; Almaas, Eivind. (2020) Genome-scale reconstructions to assess metabolic phylogeny and organism clustering. PLOS ONE.
    Academic article
  • Sulheim, Snorre; Kumelj, Tjasa; van Dissel, Dino; Salehzadeh-Yazdi, Ali; Du, Chao; Van Wezel, Gilles P.; Nieselt, Kay; Almaas, Eivind; Wentzel, Alexander; Kerkhoven, Eduard J. (2020) Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production. iScience. volum 23 (9).
    Academic article
  • Kumelj, Tjasa; Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind. (2019) Predicting strain engineering strategies using iKS1317: a genome-scale metabolic model of Streptomyces coelicolor. Biotechnology Journal.
    Academic article
  • Martyushenko, Nikolay; Almaas, Eivind. (2019) ErrorTracer: an algorithm for identifying the origins of inconsistencies in genome-scale metabolic models. Bioinformatics.
    Academic article
  • Martyushenko, Nikolay; Almaas, Eivind. (2019) ModelExplorer - software for visual inspection and inconsistency correction of genome-scale metabolic reconstructions. BMC Bioinformatics. volum 20.
    Academic article
  • Neckmann, Ulrike; Wolowczyk, Camilla; Hall, Martina; Almaas, Eivind; Ren, Jiang; Zhao, Sen; Johannessen, Bjarne; Skotheim, Rolf I.; Bjørkøy, Geir; Dijke, Peter Ten; Holien, Toril. (2019) GREM1 is associated with metastasis and predicts poor prognosis in ER-negative breast cancer patients. Cell Communication and Signaling. volum 17.
    Academic article
  • Voigt, Andre; Almaas, Eivind. (2019) Assessment of weighted topological overlap (wTO) to improve fidelity of gene co-expression networks. BMC Bioinformatics. volum 20 (58).
    Academic article
  • Gysi, Deisy Morselli; Voigt, Andre; Fragoso, Tiago de Miranda; Almaas, Eivind; Nowick, Katja. (2018) wTO: An R package for computing weighted topological overlap and a consensus network with integrated visualization tool. BMC Bioinformatics. volum 19 (392).
    Academic article
  • Karlsen, Emil; Schulz, Christian; Almaas, Eivind. (2018) Automated generation of genome-scale metabolic draft reconstructions based on KEGG. BMC Bioinformatics. volum 19 (467).
    Academic article
  • Olaisen, Camilla; Kvitvang, Hans Fredrik Nyvold; Lee, Sungmin; Almaas, Eivind; Bruheim, Per; Drabløs, Finn; Otterlei, Marit. (2018) The role of PCNA as a scaffold protein in cellular signaling is functionally conserved between yeast and humans. FEBS Open Bio. volum 8 (7).
    Academic article
  • Eidsaa, Marius; Stubbs, Lisa; Almaas, Eivind. (2017) Comparative analysis of weighted gene co-expression networks in human and mouse. PLOS ONE. volum 12 (11).
    Academic article
  • MacGillivray, Michael; Ko, Amy; Gruber, Emily; Sawyer, Miranda; Almaas, Eivind; Holder, Allen. (2017) Robust analysis of fluxes in genome-scale metabolic pathways. Scientific Reports. volum 7 (1).
    Academic article
  • Voigt, Andre; Nowick, Katja; Almaas, Eivind. (2017) A composite network of conserved and tissue specific gene interactions reveals possible genetic interactions in glioma. PLoS Computational Biology. volum 13 (9).
    Academic article
  • Cvijovic, Marija; Höfer, Thomas; Acimovic, Jure; Alberghina, Lilia; Almaas, Eivind; Besozzi, Daniela; Blomberg, Anders; Bretschneider, Till; Cascante, Marta; Collin, Olivier; de Atauri, Pedro; Depner, Cornelia; Dickinson, Robert; Dobrzynski, Maciej; Fleck, Christian; Garcia-Ojalvo, Jordi; Gonze, Didier; Hahn, Jens; Hess, Heide Marie; Hollmann, Susanne; Krantz, Marcus; Kummer, Ursula; Lundh, torbjorn; Martial, Gifta; Martins dos Santos, Vitor; Mauer-Oberthur, Angela; Regierer, Babette; Skene, Barbara; Stalidzans, Egils; Stelling, Jorg; Teusink, Bas; Workman, Christopher T.; Hohmann, Stefan. (2016) Strategies for structuring interdisciplinary education in Systems Biology: an European perspective. npj Systems Biology and Applications. volum 2.
    Academic article
  • Eidsaa, Marius; Almaas, Eivind. (2016) Investigating the relationship between k-core and s-core network decompositions. Physica A: Statistical Mechanics and its Applications. volum 449.
    Academic article
  • Kültz, Dietmar; Li, Johnathon; Paguio, Darlene; Pham, Tuan; Eidsaa, Marius; Almaas, Eivind. (2016) Population-specific renal proteomes of marine and freshwater three-spined sticklebacks. Journal of Proteomics. volum 135.
    Academic article
  • Maleki, Susan; Almaas, Eivind; Zotchev, Sergey; Valla, Svein; Ertesvåg, Helga. (2016) Alginate Biosynthesis Factories in Pseudomonas fluorescens : Localization and Correlation with Alginate Production Level. Applied and Environmental Microbiology. volum 82 (4).
    Academic article
  • Martyushenko, Nikolay; Johansen, Sigurd Hagen; Ghim, Cheol-Min; Almaas, Eivind. (2016) Hypothetical biomolecular probe based on a genetic switch with tunable symmetry and stability. BMC Systems Biology. volum 10 (39).
    Academic article
  • Almaas, Eivind; Brevik, Iver Håkon. (2013) Possible sorting mechanism for microparticles in an evanescent field. Physical Review A. Atomic, Molecular, and Optical Physics (PRA). volum 87.
    Academic article
  • Eidsaa, Marius; Almaas, Eivind. (2013) s-core network decomposition: A generalization of k-core analysis to weighted networks. Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. volum 88.
    Academic article
  • Kucharova, Veronika; Aakvik, Trine; Almaas, Eivind; Naas, Adrian Ertsås; Brautaset, Trygve; Valla, Svein. (2013) Non-Invasive Analysis of Recombinant mRNA Stability in Escherichia coli by a Combination of Transcriptional Inducer Wash-Out and qRT-PCR. PLOS ONE. volum 8 (6).
    Academic article
  • Navid, Ali; Almaas, Eivind. (2012) Genome-level transcription data of Yersinia pestis analyzed with a New metabolic constraint-based approach. BMC Systems Biology. volum 6 (150).
    Academic article
  • Ghim, CM; Almaas, Eivind. (2009) Two-Component Genetic Switch as a Synthetic Module with Tunable Stability. Physical Review Letters. volum 103 (2).
    Academic article
  • Nowicka, Katja; Gernata, Tim; Almaas, Eivind; Stubbs, Lisa. (2009) Differences in human and chimpanzee gene expression patterns define an evolving network of transcription factors in brain. Proceedings of the National Academy of Sciences of the United States of America. volum 106 (52).
    Academic article

Journal publications

  • Bernstein, David B.; Sulheim, Snorre; Almaas, Eivind; Segrè, Daniel. (2021) Addressing uncertainty in genome-scale metabolic model reconstruction and analysis. Genome Biology. volum 22.
    Scientific translation/review
  • Sulheim, Snorre; Fossheim, Fredrik A.; Wentzel, Alexander; Almaas, Eivind. (2021) Correction to: Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters (BMC Bioinformatics, (2021), 22, 1, (81), 10.1186/s12859-021-03985-0). BMC Bioinformatics. volum 22 (1).
    Errata
  • Voigt, Andre; Almaas, Eivind. (2021) Vaksinering av voksne er ikke nok. nrk.no/ytring.
    Chronicle
  • Voigt, Andre; Almaas, Eivind; Omholt, Stig William. (2021) Med smartere vaksinestrategi kan vi åpne Norge raskere – prioriter store husholdninger. Dagens næringsliv.
    Chronicle
  • Voigt, Andre; Martyushenko, Nikolay; Karlsen, Emil; Hall, Martina; Nyhamar, Kristen; Omholt, Stig William; Almaas, Eivind. (2021) Correction to: Containing pandemics through targeted testing of households (BMC Infectious Diseases, (2021), 21, 1, (548), 10.1186/s12879-021-06256-8). BMC Infectious Diseases. volum 21 (1).
    Errata
  • Omholt, Stig William; Almaas, Eivind; Voigt, Andre; Hovd, Morten; Fossen, Thor Inge; Steinsland, Ingelin. (2020) Derfor bør norske myndigheter endre sin teststrategi. Gemini.
    Chronicle
  • Omholt, Stig William; Almaas, Eivind; Voigt, Andre; Hovd, Morten; Fossen, Thor Inge; Steinsland, Ingelin. (2020) Omfattende og rettet testing for covid-19 er en billig, lite inngripende og effektiv intervensjonsstrategi. Aftenposten (morgenutg. : trykt utg.).
    Chronicle
  • Ebrahim, Ali; Almaas, Eivind; Bauer, Eugen; Bordbar, Aarash; Burgard, Anthony P.; Chang, Roger L.; Dräger, Andreas; Famili, Iman; Feist, Adam M.; Fleming, Ronan M.T.; Fong, Stephen S.; Hatzimanikatis, Vassily; Holder, Allen; Hucka, Michael; Hyduke, Daniel; Jamshidi, Neema; Lee, Sang Yup; Le Novère, Nicolas; Lerman, Joshua A.; Lewis, Nathan E.; Ma, Ding; Mahadevan, Radhakrishnan; Maranas, Costas; Nagarajan, Harish; Navid, Ali; Nielsen, Jens; Nielsen, Lars K.; Nogales, Juan; Noronha, Alberto; Pal, Csaba; Palsson, Bernhard O.; Papin, Jason A.; Patil, Kiran R.; Price, Nathan D.; Reed, Jennifer L.; Saunders, Michael; Senger, Ryan S.; Sonnenschein, Nikolaus; Sun, Yuekai; Thiele, Ines. (2015) Do genome-scale models need exact solvers or clearer standards?. Molecular Systems Biology. volum 11:831 (10).
    Letter to the editor
  • Almaas, Eivind. (2010) Sjimpansens gener - og våre. Gemini.
    publications.INTERVJUSKRIFTL
  • Almaas, Eivind. (2010) SÅ lite skiller oss fra sjimpansene. VG : Verdens gang.
    publications.INTERVJUSKRIFTL

Part of book/report

  • Almaas, Eivind; Brautaset, Trygve. (2015) Syntetisk biologi. Mendels arv - Genetikkens æra.
    publications.POPVIT_KAPITTEL
  • Almaas, Eivind; Bruheim, Per; Lale, Rahmi; Valla, Svein. (2012) Dynamics and robustness of metabolic networks: A systems biology review of Escherichia coli metabolism. Systems Microbiology - Current Topics and Applications.
    Academic chapter/article
  • Navid, Ali; Almaas, Eivind. (2012) Yersinia pestis Metabolic Network. Yersinia : Systems biology and control.
    Academic chapter/article
  • Zavareh, Zahra; Almaas, Eivind. (2012) Complex Network Analysis in Microbial Systems: Theory and Examples. Microbial Systems Biology: Methods and Protocols.
    Academic chapter/article
  • Almaas, Eivind. (2010) Evolution of metabolic networks. Evolutionary genomics and systems biology.
    Academic chapter/article

Teaching

 

  • TBT4165 - System Biology and Biological Networks
  • BT3801 - Tailored Biology: Potential, Limitations and Challenges for Humanity
  • BT8120 - Prokaryote Molecular Biology and Synthetic Biology
  • BT8118 - Metabolic Pathway Analysis

 

Media

Vaksinering av voksne er ikke nok

Vaksinering av voksne er ikke nok. Skal vi oppnå flokkimmunitet, er det helt nødvendig å vaksinere barn.

Med smartere vaksinestrategi kan vi åpne Norge raskere – prioriter store husholdninger

Store husholdninger gir mer smittespredning og bør prioriteres, særlig der smittetrykket er lavt. Det kan gi flokkimmunitet med færre vaksinedoser enn det dagens strategi vil kreve.

Derfor bør norske myndigheter endre sin teststrategi

Omfattende og rettet testing for covid-19 er en billig, lite inngripende og effektiv intervensjonsstrategi.

Omfattende og rettet testing for covid-19 er en billig, lite inngripende og effektiv intervensjonsstrategi

Slik testing fanger opp asymptomatiske og symptomatiske tilfeller tidlig i sykdomsforløpet, og den fjerner behovet for smittesporing.

Korona - åpning av samfunnet

NRK Kveldsnytt, 7.5.2020, Innslag 1

Kan kloakken gi svar på hvor utbredt koronasmitten er i samfunnet?

NRK Dagsrevyen 21, 4.8.2020 @ 5min15sek

Systematisk spytt-testing for covid-19

NRK Dagsrevyen, 22.02.2021 kl. 19, Innslag 8

Bedre koronatesting med fokus på store husstander

Dagsnytt 18 debatt, 2.11.2020

Ny teststrategi mot korona

NRK Dagsnytt 18 debatt, 22.2.2021, Innslag 3

2022

  • Poster
    Karlsen, Emil; Gylseth, Marianne; Schulz, Christian; Almaas, Eivind. (2022) Investigating Diauxic Growth Using Dynamic Enzyme-Constrained Flux Balance Analysis. 8th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2022) | AIChE ; Galway. 2022-09-28 - 2022-09-30.
  • Poster
    Pettersen, Jakob Peder; Almaas, Eivind. (2022) What Are Enzyme and Temperature Dependent Genome-Scale Models (etcGEMs) and How Do They Behave?. 8th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2022) . Society for Biological Engineering; Galway. 2022-09-28 - 2022-09-30.
  • Poster
    Schulz, Christian; Simensen, Vetle; Karlsen, Emil; Almaas, Eivind. (2022) Analyzing the Biomass for an organism. DLN conference ; Trondheim. 2022-10-20 - 2022-10-21.
  • Poster
    Schulz, Christian; Simensen, Vetle; Karlsen, Emil; Almaas, Eivind. (2022) Analyzing the Biomass for an organism. Cobra conference ; Galway. 2022-09-28 - 2022-09-30.

2021

  • Academic lecture
    Almaas, Eivind. (2021) How computational models of epidemic spread can inform decision-making dilemmas. The ethics of the Covid-19 pandemic . Programme for Applied Ethics, NTNU; Online. 2021-06-03 - 2021-06-04.
  • Academic lecture
    Karlsen, Emil; Almaas, Eivind. (2021) Modeling bacteria for production of sustainable bioconcrete. Regular department seminar, IBT NTNU . Department of Biotechnology and Food Science (NTNU); NTNU Trondheim. 2021-04-28 - 2021-04-28.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; van Dissel, Dino; Salehzadeh-Yazdi, Ali; Du, Chao; Van Wezel, Gilles P.; Nieselt, Kay; Almaas, Eivind; Wentzel, Alexander; Kerkhoven, Eduard. (2021) A systems comparison of Streptomyces coelicolor M1152 and M145 reveals major metabolic rewiring. COBRA 2021 . Aiche; Virtuellt. 2021-03-01 - 2021-03-02.

2020

  • Academic lecture
    Almaas, Eivind. (2020) Stories of network analysis: Cellular metabolism to COVID-19. What is Life? Lecture series 2020 . Karolinska Institutet; Online video presentation. 2020-05-12 - 2020-05-12.
  • Poster
    Hall, Martina; Skogholt, Anne Heidi; Almaas, Eivind. (2020) Network approach for identifying the most common paths of cardiovascular disease history. NetSci . The Network Science Society; Online (Rome). 2020-09-21 - 2020-09-25.
  • Poster
    Pettersen, Jakob Peder; Vadstein, Olav; Almaas, Eivind. (2020) What do co-occurence network actually tell us? A case study. NetSci 2020 . The Network Science Society; Online. 2020-09-14 - 2020-09-27.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2020) Beer in the NMR - Who left Fingerprints?. NORBIS anual conference ; 2020-11-03 - 2020-11-03.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2020) Combining Theory and Praxis: Measuring (Microbial) Biomass Composition for Genome-Scale Metabolic Modelling. NBS contact meeting ; 2020-01-23 - 2020-01-26.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2020) First project meeting presentation. BedPan project meeting ; 2020-03-04 - 2020-03-05.
  • Academic lecture
    Sulheim, Snorre; Fredrik A., Fossheim; Almaas, Eivind. (2020) Automatic reconstruction of metabolic pathways from annotated biosynthetic gene clusters. NORBIS annual national conference 2020 . NORBIS; Trondheim / online. 2020-11-03 - 2020-11-04.

2019

  • Academic lecture
    Almaas, Eivind. (2019) Computational analysis & prediction of phenotypes.. and some experiments. Guest Lecture . Center for Complex Network Research, Northeastern University; Boston. 2019-11-15 - 2019-11-15.
  • Academic lecture
    Almaas, Eivind. (2019) Genome to phenotypes through computational modeling. Guest Lecture . Prof. Bernhard Palsson; Dept. of Bioengineering, UC San Diego. 2019-09-11 - 2019-09-11.
  • Lecture
    Almaas, Eivind. (2019) How to go on a sabbatical. IBT's weekly Department lunch . IBT; IBT's lunch room, NV Faculty, NTNU, Gløshaugen. 2019-08-21.
  • Academic lecture
    Almaas, Eivind. (2019) On the mapping of genome to phenotypes through computational modeling. Guest Lecture . Dr. Ali Navid; Lawrence Livermore National Laboratory. 2019-09-24 - 2019-09-24.
  • Academic lecture
    Almaas, Eivind. (2019) On the mapping of genome to phenotypes through computational modeling. Guest Lecture . Prof. Dietmar Kueltz; Dept. of Animal Science, UC Davis. 2019-09-23 - 2019-09-23.
  • Poster
    Ertesvåg, Helga; Haslene-Hox, Hanne; Aasen, Inga Marie; Almaas, Eivind; Bartosova, Zdenka; Heggeset, Tonje Marita Bjerkan; Le, Simone Balzer; Rau, E-Ming; Stafsnes, Marit Hallvardsdotter; Voigt, Andre; Bruheim, Per. (2019) Industrial microbiology – 'omics methods and modelling as tools for process optimization. DigitalLife 2019 . Digital Life Norway; Tromsø. 2019-09-05 - 2019-09-06.
  • Academic lecture
    Hall, Martina; Almaas, Eivind. (2019) Differential network analysis of subtypes and stages of breast cancer. Det 20. norske statistikermøtet . Norsk statistisk forening; Sola. 2019-06-15 - 2019-06-20.
  • Poster
    Karlsen, Emil; Almaas, Eivind. (2019) Metabolic modeling for microbial production of bio-concrete. NBS Contact Meeting 2019 ; 2019-01-24 - 2019-01-27.
  • Lecture
    Schulz, Christian; Almaas, Eivind. (2019) Beer'omics - Kveik for Christmas. IBT department Seminar ; 2019-12-18 - 2019-12-18.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2019) Combining Genome-Scale modelling with HUNT. Jebsen Center meeting ; 2019-10-25 - 2019-10-25.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2019) Genome-Scale modelling - No4. Bianual project meeting ; 2019-10-30 - 2019-10-30.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2019) Genome-scale metabolic modeling: Metabolic engineering to increase production of nylon precursors in Pseudomonas. NBS meeting 2019 . NBS; 2019-01-24 - 2019-01-27.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2019) Genome-scale metabolic modelling 3. Bianual project meeting ; 2019-03-11 - 2019-03-11.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2019) Genome-scale metabolic reconstructions for phylogeny?. Fish under stress - Systems biology and mathematical modelling ; 2019-05-24 - 2019-05-28.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2019) Genome-scale metabolic reconstructions for phylogeny?. Multivariate analysis of omics data with special emphasis on metabolomics Summerschool ; 2019-05-17 - 2019-05-21.
  • Poster
    Schulz, Christian; Karlsen, Emil; Kumar, Kanhaiya; Bartosova, Zdenka; Schmid, Jochen; Bruheim, Per; Almaas, Eivind. (2019) Measuring Biomass Composition for Modelling. DLN anual conference ; 2019-09-05 - 2019-09-06.
  • Academic lecture
    Simensen, Vetle; Almaas, Eivind. (2019) Reconstruction of a genome-scale metabolic model for the analysis of the oleaginous phenotype of Aurantiochytrium sp. T66. NORBIS annual conference . NORBIS; Oscarsborg Festning. 2019-09-30 - 2019-10-02.
  • Poster
    Simensen, Vetle; Voigt, Andre; Almaas, Eivind. (2019) Genome-scale modeling of Auranthochytrium sp. T66 for increased fatty acid production. Digital Life 2019 . Digital Life Norway; Tromsø. 2019-09-05 - 2019-09-05.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; Salehzadeh-Yazdi, Ali; van Dissel, Dino; Chao, Du; Nieselt, Kay; Almaas, Eivind; Wentzel, Alexander; Kerkhoven, Eduard. (2019) An enzyme-constrained genome-scale metabolic model of Streptomyces coelicolor reveals global effects of gene cluster deletion and rpoB mutation. Digital Life Norway Conference 2019 . Digital Life Norway; Tromsø. 2019-09-05 - 2019-09-06.
  • Lecture
    Voigt, Andre; Almaas, Eivind. (2019) Online platform for biological network analysis in ELIXIR. NBS Contact Meeting, 2019 . Norwegian Biochemical Society; Røros. 2019-01-25 - 2019-01-25.
  • Academic lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Borgos, Sven Even F.; Kumelj, Tjasa; Kumar, Kanhaiya; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien S.; Mead, David A.; Medema, Marnix H.; Navarro Munoz, Jorge; Fernandez-Guerra, Antonio; van Dissel, Dino; Hulst, Mandy; Chao, Du; Van Wezel, Gilles P.; Wang, Hao; Kerkhoven, Eduard; Salehzadeh-Yazdi, Ali; Wolkenhauer, Olaf; Nieselt, Kay; Iftime, Dumitrita; Bera, Agnieszka; Hinder, Markus; Stegmann, Evi; Wohlleben, Wolfgang; Ellingsen, Trond Erling; Sletta, Håvard. (2019) Expanding the (meta)genomics toolbox for the discovery and production of novel natural products from microbial resources. 2nd Synthetic Biology for Natural Products Conference . Fusion Conferences; Puerto Vallarta. 2019-06-02 - 2019-06-05.
  • Academic lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Borgos, Sven Even F.; Kumelj, Tjasa; Kumar, Kanhaiya; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien S.; Mead, David A.; Medema, Marnix H.; Navarro Munoz, Jorge; Fernandez-Guerra, Antonio; van Dissel, Dino; Hulst, Mandy; Du, Chao; Van Wezel, Gilles P.; Wang, Hao; Kerkhoven, Eduard; Salehzadeh-Yazdi, Ali; Wolkenhauer, Olaf; Nieselt, Kay; Iftime, Dumitrita; Bera, Agnieszka; Hinder, Markus; Stegmann, Evi; Wohlleben, Wolfgang; Ellingsen, Trond Erling; Sletta, Håvard. (2019) Expanding the (meta)genomics toolbox for the discovery and production of novel natural products from microbial resources. Functional Metageomics 2019 . SINTEF/NTNU; Trondheim. 2019-06-16 - 2019-09-19.
  • Poster
    Zehner, Jennifer Simone; Karlsen, Emil; Razbani, Mohammad Amin; Jettestuen, Espen; Malthe-Sørensen, Anders; Wentzel, Alexander; Sikorski, Pawel; Almaas, Eivind; Røyne, Anja. (2019) The quest for bio-concrete: crossing disciplinary boundaries and wrangling bacteria to enable cleaner construction. DigitalLife 2019 ; 2019-09-05 - 2019-09-06.

2018

  • Academic lecture
    Almaas, Eivind. (2018) Differential network analysis as approach to study human disease. Systems Biology for Industrial Biotechnology . ERASysAPP workshop combined with the DLN Volterra lecture; Trondheim. 2018-11-09 - 2018-11-09.
  • Academic lecture
    Almaas, Eivind. (2018) Genome-scale metabolic models with uncertainty and global constraints. International Study Group for Systems Biology (ISGSB) Conference 2018 . International Study Group for Systems Biology (ISGSB); Tromsø. 2018-09-24 - 2018-09-28.
  • Academic lecture
    Almaas, Eivind; Karlsen, Emil; Schulz, Christian; Martyushenko, Nikolay. (2018) Dynamic FBA with Global Constraints on Cellular Protein Fraction. 5th Conference on Constraint-Based Reconstruction and Analysis ; Seattle. 2018-10-14 - 2018-10-16.
  • Poster
    Hall, Martina; Almaas, Eivind. (2018) Comparison of statistical methods and network analysis for detecting genes related to breast cancer. DLN Annual Conference . DLN; Bergen. 2018-03-20 - 2018-03-21.
  • Academic lecture
    Hall, Martina; Almaas, Eivind. (2018) Constructing gene co-expression network using penalized regression. NetSci . The Network Science Society; Paris. 2018-06-01 - 2018-06-15.
  • Academic lecture
    Karlsen, Emil; Almaas, Eivind. (2018) In silico evolution of plant-like structures. NetSci 2018 Satellite: Games on Networks . The Network Science Society; Paris. 2018-06-11 - 2018-06-15.
  • Academic lecture
    Karlsen, Emil; Almaas, Eivind. (2018) Modeling the developmental physiology of plants. 2nd annual BioCat conference . BioCat; Hurdal. 2018-06-04 - 2018-06-06.
  • Academic lecture
    Karlsen, Emil; Schulz, Christian; Almaas, Eivind. (2018) Automatic assembly of genome-scale metabolic draft reconstructions from KEGG data. NORBIS Annual Conference 2018 . NORBIS; Voss. 2018-10-17 - 2018-10-19.
  • Poster
    Karlsen, Emil; Zehner, Jennifer Simone; Razbani, Mohammad Amin; Jettestuen, Espen; Malthe-sørenssen, Anders; Wentzel, Alexander; Sikorski, Pawel; Almaas, Eivind; Røyne, Anja. (2018) Metabolic modelling, reactive transport modelling, and experimental verification of microbial-induced processes in the production of bio-concrete. DigitalLife 2018 . Senter for Digitalt Liv Norge; Bergen. 2018-03-20 - 2018-03-21.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Combining phylogeny with genome-scale metabolic networks: Another tree of life and infinite engineering possibilities?. Micobial Biotechnology Division meeting ; 2018-06-22 - 2018-06-22.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Cross-organism-wide network comparison to identify conserved gene functions. Digital Life Annual PhD School meeting ; 2018-05-30 - 2018-06-01.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Discovery of conserved functions within cross-organism-wide genes using reaction networks. BioCat annual conference ; 2018-06-03 - 2018-06-06.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) From Zero to Hero: The Story of Modeling Pseudomonas. Department meeting IBT and Food Science ; 2018-05-16 - 2018-05-16.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Genome-Scale Metabolic Modeling for Biotechnology: What We Need to Conduct Our Magic. Micobial Biotechnology Division meeting ; 2018-03-09 - 2018-03-09.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Genome-Scale metabolic modelling. Bianual PolyBugs project meeting ; Trondheim. 2018-08-13 - 2018-08-13.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2018) Genome-scale metabolic reconstructions for phylogeny?. COBRA conference 2018 ; Seattle, WA. 2018-10-14 - 2018-10-16.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) PolyBugs – WP2 Genome-Scale Metabolic Modelling. Project meeting ; 2018-01-16 - 2018-01-17.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2018) Using reaction networks to identify cross-organism-wide genes with conserved functions. Summer School Systems and Synthetic Biology ; Sienna. 2018-07-24 - 2018-07-30.
  • Academic lecture
    Schulz, Christian; Almaas, Eivind. (2018) Using reactions networks to identify cross organism-wide genes with conserved functions. NetSci 2018 Conference Paris ; 2018-06-11 - 2018-06-15.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2018) Virtual biological cell engineering: Differences and similarities in genome-scale metabolic models shown for the Pseudomonas case. DigitalLife anual conference ; 2018-03-20 - 2018-03-21.
  • Poster
    Sulheim, Snorre; Degnes, Kristin Fløgstad; Nguyen, Giang-Son; Wentzel, Alexander; Almaas, Eivind. (2018) A network approach to efficient drug discovery. International School and Conference on Network Science . Network Science society; Paris. 2018-06-11 - 2018-06-15.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; Sletta, Håvard; Wentzel, Alexander; Almaas, Eivind. (2018) Predicting phenotypes using iKS1317: a genome-scale metabolic model of Streptomyces coelicolor. Digital Life Conference 2018 . Centre for Digital Life Norway; Bergen. 2018-03-20 - 2018-03-21.
  • Poster
    Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind. (2018) Modelling the metabolic switch S. coelicolor triggered by phosphate depletion. 5th Conference on Constraint-Based Reconstruction and Analysis (COBRA 2018) . Society for Biological Engineering; Seattle. 2018-10-14 - 2018-10-16.
  • Academic lecture
    Voigt, Andre; Almaas, Eivind. (2018) Pyramid scheme or currency? Time-dependent directed modelling of blockchain-based cryptocurrencies. NetSci 2018 ; Paris. 2018-06-15 - 2018-06-15.
  • Lecture
    Voigt, Andre; Almaas, Eivind. (2018) Using Python for complex network analysis. Elixir Norge All Hands 2018 . Elixir Norge; Drøbak. 2018-10-23 - 2018-10-23.

2017

  • Academic lecture
    Hall, Martina; Almaas, Eivind. (2017) Using network analysis for studying motion variables of infants at high risk of developing cerebral palsy. NORBIS Reseach School Annual Conference . NORBIS; Tromsø. 2017-11-08 - 2017-11-10.
  • Academic lecture
    Karlsen, Emil; Almaas, Eivind. (2017) A method for dynamic flux balance analysis with global constraints. Methodologies for Digital Life - Focus on Metabolic Systems . Senter for Digitalt Liv Norge; Bergen. 2017-10-06 - 2017-10-06.
  • Poster
    Karlsen, Emil; Almaas, Eivind. (2017) Dynamic Flux Balance Analysis with Global Constraints. 3rd annual meeting of NORBIS . NORBIS; Tromsø. 2017-10-08 - 2017-10-10.
  • Poster
    Kumelj, Tjasa; Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind. (2017) A genome-scale metabolic model for Streptomyces coelicolor. Advanced course on Metabolic engineering and Systems Biology . Chalmers University of Technology; Gøteborg. 2017-06-18 - 2017-06-22.
  • Academic lecture
    Kumelj, Tjasa; Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind. (2017) Extended GEM of Streptomyces coelicolor for production of secondary metabolites. International conference on systems biology 2017 (ICSB 2017) . International Society for Systems Biology; Blacksburg, Virgina. 2017-08-06 - 2017-08-12.
  • Poster
    Schulz, Christian; Almaas, Eivind. (2017) Comparison of publicly available Pseudomonas genome scale metabolic models. Norbis anual Conference ; 2017-11-08 - 2017-11-10.
  • Poster
    Sulheim, Snorre; Almaas, Eivind; Kumelj, Tjasa. (2017) A genome-scale metabolic reconstruction of S. coelicolor. NORBIS annual national conference 2017 . NORBIS; Hillesøy, Troms. 2017-11-08 - 2017-11-10.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; Wentzel, Alexander; Almaas, Eivind. (2017) A genome-scale metabolic model for Streptomyces coelicolor. Methodologies for Digital Life - Focus on Metabolic Systems . Senter for Digitalt Liv Norge; Bergen. 2017-10-06.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; Wentzel, Alexander; Almaas, Eivind. (2017) A genome-scale metabolic model for Streptomyces coelicolor. Advanced course on Metabolic engineering and Systems Biology . Chalmers University of Technology; Gøteborg. 2017-06-18 - 2017-06-22.
  • Academic lecture
    Sulheim, Snorre; Kumelj, Tjasa; Wentzel, Alexander; Almaas, Eivind. (2017) A genome-scale metabolic model for Streptomyces coelicolor. Lunsj-seminar . Institutt for bioteknologi og matvitenskap, NTNU; Trondheim. 2017-09-20 - 2017-09-20.
  • Academic lecture
    Sulheim, Snorre; Kumelj, Tjasa; Wentzel, Alexander; Almaas, Eivind. (2017) A genome-scale metabolic model for Streptomyces coelicolor. Modelling living systems - From foundational problems to applications . Senter for Digitalt Liv Norge; Bergen. 2017-09-07 - 2017-09-08.
  • Poster
    Sulheim, Snorre; Kumelj, Tjasa; Wentzel, Alexander; Almaas, Eivind. (2017) Extended GEM of Streptomyces coelicolor for production of secondary metabolites. International conference on systems biology 2017 (ICSB 2017) ; Blacksburg, Virgina. 2017-08-06 - 2017-08-12.
  • Lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Kumelj, Tjasa; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien; ERASysAPP SYSTERACT cons., The; Ellingsen, Trond Erling; Sletta, Håvard. (2017) New bioactive compounds from environmental microbial resources by an integrated functional (meta)genomics approach. Synthetic Biology of Natural Products . FUSION conferences; Hotel Fiesta Americana Condesa, Cancun. 2017-03-05 - 2017-03-08.
  • Lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Kumelj, Tjasa; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien; ERASysAPP SYSTERACT cons., The; Ellingsen, Trond Erling; Sletta, Håvard. (2017) New bioactive compounds from environmental microbial resources by an integrated functional (meta)genomics approach. BioProsp 2017, the 8th International Conference on Marine Biotechnology . UiT; UiT, Tromsø. 2017-03-08 - 2017-03-10.
  • Lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Kumelj, Tjasa; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien; ERASysAPP SYSTERACT cons., The; Ellingsen, Trond Erling; Sletta, Håvard. (2017) New bioactive compounds from environmental microbial resources by an integrated functional (meta)genomics approach. Centre for Digital Life Norway - Annual conference . Centre for Digital Life Norway; Hotel Bristol, Oslo. 2017-03-20 - 2017-03-21.
  • Lecture
    Wentzel, Alexander; Lewin, Anna; Nordborg, Anna; Nguyen, Giang-Son; Degnes, Kristin Fløgstad; Sulheim, Snorre; Kumelj, Tjasa; Bruheim, Per; Almaas, Eivind; Liles, Mark R.; Sandoval, Megan; Waits, Damien; ERASysAPP SYSTERACT cons., The; Ellingsen, Trond Erling; Sletta, Håvard. (2017) New bioactive compounds from environmental microbial resources by an integrated functional (meta)genomics approach. Meeting with the ReDig project . SINTEF, RG Biotechnology; SINTEF, RG Biotechnology. 2017-09-19 - 2017-09-19.

2016

  • Poster
    Heggeset, Tonje Marita Bjerkan; Lewin, Anna; Nguyen, Giang-Son; Nordborg, Anna; Degnes, Kristin Fløgstad; Sletta, Håvard; Zahlsen, Kolbjørn; Ellingsen, Trond Erling; Bruheim, Per; Almaas, Eivind; Wentzel, Alexander. (2016) INBioPharm - Integrated Novel Natural Product Discovery and Production Platform for Accelerated Biopharmaceutical Innovation from Microbial Biodiversity. Functional Metagenomics 2016 . SINTEF; Jægtvolden Fjordhotell, Inderøy. 2016-09-25 - 2016-09-28.

2014

  • Academic lecture
    Almaas, Eivind. (2014) A story of biological networks. Forskningssamarbeid om EØS-Norge midler ; Riga. 2014-02-25 - 2014-02-25.
  • Popular scientific lecture
    Almaas, Eivind. (2014) NTNU iGEM: Syntetisk biologi. Åpen dag 2014 . NTNU; Trondheim. 2014-04-29 - 2014-04-29.
  • Programme participation
    Almaas, Eivind; Lale, Rahmi; Andersen, Maria; Moghaddam, Shiva; Stormo, Ellen; Adl, Patricia; Kjønstad, Ingrid Fadum. (2014) Syntetisk biologi. Schrödingers Katt [TV]. 2014-03-27.

2013

  • Interview
    Almaas, Eivind. (2013) Hamburger fra laboratoriet. P1 Her og Nå [Radio]. 2013-08-05.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; Næringsforeningen i Trondheim, Trondheim. 2013-09-27 - 2013-09-27.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; Rektors stab, NTNU, Trondheim. 2013-09-26 - 2013-09-26.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; GK Rør AS, Trondheim. 2013-09-21 - 2013-09-21.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; Atelier Ilsvika, Trondheim. 2013-09-20 - 2013-09-20.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; Trondheim Kommune, Trondheim. 2013-09-19 - 2013-09-19.
  • Popular scientific lecture
    Almaas, Eivind. (2013) "Nettverk i hverdagen: Fra det opplagte til det overraskende". Forsker til lunsj ; KIM senteret, Trondheim. 2013-09-18 - 2013-09-18.

2012

  • Popular scientific lecture
    Almaas, Eivind. (2012) Bacterial Anti-Cancer Kamikaze explained. European iGEM Jamboree 2012 ; Vrije University, Amsterdam. 2012-10-05 - 2012-10-07.
  • Interview
    Almaas, Eivind. (2012) Gjør det selv-biologene. A-magasinet [Avis]. 2012-05-25.

2011

  • Interview
    Almaas, Eivind. (2011) Syntetisk biologi. Teknisk Ukeblad [Avis]. 2011-09-29.

2010

  • Programme participation
    Almaas, Eivind. (2010) Fanget i nettet. Historien om hvordan alt henger sammen. http://www.nrk.no/p2_akademiet/ [Radio]. 2010-04-24.
  • Popular scientific lecture
    Almaas, Eivind. (2010) Hva gjør oss smartere?. Foredrag på Universitetet i Stavanger ; Stavanger. 2010-01-21 - 2010-01-21.
  • Interview
    Almaas, Eivind; Hjorthol, Lars Martin. (2010) Nettverksgener skiller mennesker og sjimpanser. null [Internett]. 2010-02-21.
  • Interview
    Almaas, Eivind; Olstad, Lisa. (2010) Hvorfor ble vi mennesker?. null [Internett]. 2010-04-10.
  • Poster
    Tripathi, Sushil; Thommesen, Liv; Skjøndal-Bar, Nadav; Almaas, Eivind; Kuiper, Martin; Lægreid, Astrid. (2010) Modelling the gastrin signalling pathways. 11th International Conference on Systems Biology ; Edinburgh. 2010-10-10 - 2010-10-16.
  • Poster
    Tripathi, Sushil; Thommesen, Liv; Skjøndal-Bar, Nadav; Almaas, Eivind; Kuiper, Martin; Lægreid, Astrid. (2010) Modelling the gastrin signalling pathways. 22nd International Conference of the Society for Medical Innovation and Technology ; Trondheim. 2010-09-02 - 2010-09-04.
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