Browsing Bergen Open Research Archive by Author "Hernández Sánchez, Luis Francisco"
Now showing items 1-4 of 4
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Analyzing the Structure of Pathways and Its Influence on the Interpretation of Biomedical Proteomics Data Sets
Burger, Bram; Hernández Sánchez, Luis Francisco; Lereim, Ragnhild Reehorst; Barsnes, Harald; Vaudel, Marc (Peer reviewed; Journal article, 2018)Biochemical pathways are commonly used as a reference to conduct functional analysis on biomedical omics data sets, where experimental results are mapped to knowledgebases comprising known molecular interactions collected ... -
Consequences of refining biological networks through detailed pathway information : From genes to proteoforms
Hernández Sánchez, Luis Francisco (Doctoral thesis, 2022-11-28)Biologiske nettverk kan brukes til å modellere molekylære prosesser, forstå sykdomsprogresjon og finne nye behandlingsstrategier. Denne avhandlingen har undersøkt hvordan utformingen av slike nettverk påvirker deres struktur, ... -
PathwayMatcher: proteoform-centric network construction enables fine-granularity multi-omics pathway mapping
Hernández Sánchez, Luis Francisco; Burger, Bram; Horro Marcos, Carlos; Fabregat, Antonio; Johansson, Stefan; Njølstad, Pål Rasmus; Barsnes, Harald; Hermjakob, Henning; Vaudel, Marc (Peer reviewed; Journal article, 2019-07-30)Background Mapping biomedical data to functional knowledge is an essential task in bioinformatics and can be achieved by querying identifiers (e.g., gene sets) in pathway knowledge bases. However, the isoform and ... -
Proteomics Standards Initiative Extended FASTA Format
Binz, Pierre-Alain; Shofstahl, Jim; Vizcaino, Juan Antonio; Barsnes, Harald; Chalkley, Robert J.; Menschaert, Gerben; Alpi, Emanuele; Clauser, Karl; Eng, Jimmy K.; Lane, Lydie; Seymour, Sean L.; Hernández Sánchez, Luis Francisco; Mayer, Gerhard; Eisenacher, Martin; Perez-Riverol, Yasset; Kapp, Eugene A.; Mendoza, Luis; Baker, Peter R.; Collins, Andrew; Van Den Bossche, Tim; Deutsch, Eric W. (Peer reviewed; Journal article, 2019)Mass-spectrometry-based proteomics enables the high-throughput identification and quantification of proteins, including sequence variants and post-translational modifications (PTMs) in biological samples. However, most ...