Blar i NTNU Open på forfatter "Almaas, Eivind"
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Establishing a Protocol for Quantification of Proteins in Biomass Samples
Skagen, Lilly Moland (Master thesis, 2022)Når man driver med forskning på ulike organismer er det viktig å ha representative referanser å sammenligne resultatene med. Idag blir det meste forskning sammenlignet med data fra modell organismer, eller organismer med ... -
Evaluation and improvement of shelf stability of New England IPAs - In terms of oxidative degradation
Loktu, Marius (Master thesis, 2022)I dagens marked selges som regel New England IPA med kort holdbarhet og anbefalinger om kald oppbevaring, da stilen tilsynelatende lett påvirkes av oksidasjon. Hovedmålet med denne oppgaven var å undersøke om enkelte ... -
Experimental determination of Escherichia coli biomass composition for constraint-based metabolic modeling
Simensen, Vetle; Schulz, Christian; Karlsen, Emil; Bråtelund, Signe; Burgos, Idun Maria Tokvam; Thorfinnsdottir, Lilja Brekke; Garcia Calvo, Laura; Bruheim, Per; Almaas, Eivind (Peer reviewed; Journal article, 2022)Genome-scale metabolic models (GEMs) are mathematical representations of metabolism that allow for in silico simulation of metabolic phenotypes and capabilities. A prerequisite for these predictions is an accurate ... -
Exploring the in vivo and in silico behaviour of the synthetic methylotroph Bacillus subtilis 168 pBV2mp_mdhBm
Linn Sandvik (Master thesis, 2023)Bacillus subtilis er en type bakterie som er mye brukt som cellefabrikk i bioteknologisk industri (Su 2020). Bakterien kultiveres vanligvis med glukose som karbonkilde (Kleijn 2010), men det har oppstått en interesse for ... -
Fluorescent Reporters for investigating the Bacterial Stringent Response
Pahr, Jarle Magnus Ribe (Master thesis, 2013)The ``stringent response'' is a bacterial physiological adaptation to nutritional stress most well studied in the model organism \textit{Escherichia coli}. It is a research topic of interest both for increasing our ... -
Foundation for massive-scale analysis of fermented beverages
Antonsen, Adrian (Master thesis, 2021)Brygging og konsum av øl er sentralt i svært mange kulturer, og er en av de eldste vedvarende formene for bioteknologi vi har. Det kommersielle markedet for øl er stort, med enormt mange ulike typer og stiler allerede i ... -
Genome-level transcription data of Yersinia pestis analyzed with a New metabolic constraint-based approach
Navid, Ali; Almaas, Eivind (Journal article; Peer reviewed, 2012)Background: Constraint-based computational approaches, such as flux balance analysis (FBA), have proven successful in modeling genome-level metabolic behavior for conditions where a set of simple cellular objectives can ... -
Genome-scale metabolic modelling when changes in environmental conditions affect biomass composition
Schulz, Christian; Kumelj, Tjasa; Karlsen, Emil; Almaas, Eivind (Peer reviewed; Journal article, 2021)Genome-scale metabolic modeling is an important tool in the study of metabolism by enhancing the collation of knowledge, interpretation of data, and prediction of metabolic capabilities. A frequent assumption in the use ... -
Genome-scale metabolic models reveal determinants of phenotypic differences in non-Saccharomyces yeasts
Pettersen, Jakob Peder; Castillo, Sandra; Jouhten, Paula; Almaas, Eivind (Peer reviewed; Journal article, 2023)Background - Use of alternative non-Saccharomyces yeasts in wine and beer brewing has gained more attention the recent years. This is both due to the desire to obtain a wider variety of flavours in the product and to reduce ... -
Genome-Scale Modeling of Embryonic Stem Cells
Nyhamar, Kristen (Master thesis, 2023)Genom-skala metabolisk modellering har nylig blitt et sentralt verktøy innen bioteknologi. I denne masteroppgaven er målet å bruke rammeverket sMOMENT til å kombinere omics-data med en genom-skala metabolisk rekonstruksjon ... -
Genome-scale models and consequences of mass constraints and availability of enzymes
Kumelj, Tjasa (Doctoral theses at NTNU;2021:294, Doctoral thesis, 2021)Genome-scale metabolic reconstructions offer a system-level view of metabolic networks with genetic basis and suggest mechanistic determination of cell's physiological homeostatic states. Consequently, they offer the ability ... -
Genome-scale reconstructions to assess metabolic phylogeny and organism clustering
Schulz, Christian; Almaas, Eivind (Peer reviewed; Journal article, 2020)Approaches for systematizing information of relatedness between organisms is important in biology. Phylogenetic analyses based on sets of highly conserved genes are currently the basis for the Tree of Life. Genome-scale ... -
GREM1 is associated with metastasis and predicts poor prognosis in ER-negative breast cancer patients
Neckmann, Ulrike; Wolowczyk, Camilla; Hall, Martina; Almaas, Eivind; Ren, Jiang; Zhao, Sen; Johannessen, Bjarne; Skotheim, Rolf I.; Bjørkøy, Geir; Dijke, Peter Ten; Holien, Toril (Journal article; Peer reviewed, 2019)Background In breast cancer, activation of bone morphogenetic protein (BMP) signaling and elevated levels of BMP-antagonists have been linked to tumor progression and metastasis. However, the simultaneous upregulation of ... -
High-Resolution 1D 1H Nuclear Magnetic Resonance, Multivariate Analysis and Heteronuclear Single Quantum Coherence Spectroscopy for Comparing Different Sample Preparation Methods and Styles of Beer
Zotchev, Kristoffer (Master thesis, 2020)The consumption of beer is deeply embedded in Norwegian history, all the way back to when the vikings celebrated after a day of successful plundering. Worldwide, the variety of different kinds of beers is greatly increasing, ... -
High‐quality genome‐scale metabolic model of Aurantiochytrium sp. T66
Simensen, Vetle; Voigt, Andre; Almaas, Eivind (Journal article; Peer reviewed, 2021)The long‐chain, ω‐3 polyunsaturated fatty acids (PUFAs) (e.g., eicosapentaenoic acid [EPA] and docosahexaenoic acid [DHA]), are essential for humans and animals, including marine fish species. Presently, the primary source ... -
Host range expansion of phage cocktails: automation and study of Appelmans protocol
Dougherty, Peter Erdmann (Master thesis, 2021)Imens antibiotikaresistens sprer seg globalt, har bakteriofager fått fornyet oppmerksomhet som alternativ behandlingsmåte for bakterielle infeksjoner. Dette prosjektet tar for seg to aspekter i utviklingen av bakteriofager ... -
Human Phenotype Prediction Through use of Variant Data in Metabolic Modeling
Landa, Sigve Strand (Master thesis, 2022)Føremålet med dette prosjektet var utvikling av ein metode for bruk av variasjonsdata til å selektere gen for fjerning i metabolsk modellering. Motivasjonen er moglegheita til å kunne oppdage sjukdomsframkallande variantar, ... -
Hypothetical biomolecular probe based on a genetic switch with tunable symmetry and stability
Martyushenko, Nikolay; Johansen, Sigurd Hagen; Ghim, Cheol-Min; Almaas, Eivind (Peer reviewed; Journal article, 2016)Background Genetic switches are ubiquitous in nature, frequently associated with the control of cellular functions and developmental programs. In the realm of synthetic biology, it is of great interest to engineer genetic ... -
Identification of Antimicrobial Drug Targets from Robustness Properties of Metabolic Networks
Øyås, Ove (Master thesis, 2015)A reaction universe containing all 13,849 metabolic reactions known to exist was constructed and found to share many topological properties with real-world metabolic networks. Integration of the reaction universe into 43 ... -
Identification of Novel Genes associated with Rheumatoid Arthritis using Differential Gene Co-Expression Analysis
Moksnes, Marta Riise (Master thesis, 2018)Large RNA-Seq and DNA microarray data sets have enabled the study of relationships between genes through co-expression analyses. Changes in gene co-expression patterns are often related to changes in biological function, ...