Blar i Bergen Open Research Archive på forfatter "Puntervoll, Pål"
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BioXSD: the common data-exchange format for everyday bioinformatics web services
Kalaš, Matúš; Puntervoll, Pål; Joseph, Alexandre; Bartaševičiūtė, Edita; Töpfer, Armin; Venkataraman, Prabakar; Pettifer, Steve; Bryne, Jan Christian; Ison, Jon; Blanchet, Christophe; Rapacki, Kristoffer; Jonassen, Inge (Peer reviewed; Journal article, 2010)Motivation: The world-wide community of life scientists has access to a large number of public bioinformatics databases and tools, which are developed and deployed using diverse technologies and designs. More and more of ... -
A closer look into the microbiome of microalgal cultures
Steinrücken, Pia; Jackson, Steve; Müller, Oliver; Puntervoll, Pål; Kleinegris, Dorinde Mechtilde Meike (Journal article; Peer reviewed, 2023)Although bacteria are commonly co-occurring in microalgal cultivation and production systems, little is known about their community structure and how it might be affected by specific microalgal groups or growth conditions. ... -
Data partitioning enables the use of standard SOAP Web Services in genome-scale workflows
Sztromwasser, Paweł; Puntervoll, Pål; Petersen, Kjell (Peer reviewed; Journal article, 2011)Biological databases and computational biology tools are provided by research groups around the world, and made accessible on the Web. Combining these resources is a com- mon practice in bioinformatics, but integration of ... -
Development of an enterotoxigenic Escherichia colivaccine based on the heat-stable toxin
Zegeye, Ephrem Debebe; Govasli Larsen, Morten Andreas; Sommerfelt, Halvor; Puntervoll, Pål (Peer reviewed; Journal article, 2018)Infection with enterotoxigenic Escherichia coli (ETEC) is an important cause of diarrhea-related illness and death among children under 5 years of age in low– and middle-income countries (LMIC). Recent studies have found ... -
Direct data transfer between SOAP web services in Orchestration
Subramanian, Sattanathan; Sztromwasser, Paweł; Puntervoll, Pål; Petersen, Kjell (Chapter; Peer reviewed, 2012)In scientific data analysis, workflows are used to integrate and coordinate resources such as databases and tools. Workflows are normally executed by an orchestrator that invokes component services and mediates data transport ... -
ELM: the status of the 2010 eukaryotic linear motif resource
Gould, Cathryn M.; Diella, Francesca; Via, Allegra; Puntervoll, Pål; Gemünd, Christine; Chabanis-Davidson, Sophie; Michael, Sushama; Sayadi, Ahmed; Bryne, Jan Christian; Chica, Claudia; Seiler, Markus; Davey, Norman E.; Haslam, Neill; Weatheritt, Robert J.; Budd, Aidan; Hughes, Timothy; Pas, Jakub; Rychlewski, Leszek; Trave, Gilles Michel; Aasland, Rein; Helmer-Citterich, Manuela; Linding, Rune; Gibson, Toby J. (Peer reviewed; Journal article, 2009-11-17)Linear motifs are short segments of multidomain proteins that provide regulatory functions independently of protein tertiary structure. Much of intracellular signalling passes through protein modifications at linear motifs. ... -
Identification and characterization of retinoblastoma gene mutations disturbing apoptosis in human breast cancers
Berge, Elisabet Ognedal; Knappskog, Stian; Geisler, Stephanie; Staalesen, Vidar; Pacal, Marec; Børresen-Dale, Anne-Lise; Puntervoll, Pål; Lillehaug, Johan; Lønning, Per Eystein (Peer reviewed; Journal article, 2010-07-01)Background The tumor suppressor pRb plays a key role regulating cell cycle arrest, and disturbances in the RB1 gene have been reported in different cancer forms. However, the literature reports contradictory findings with ... -
Independent losses of a xenobiotic receptor across teleost evolution
Eide, Marta; Rydbeck, Halfdan; Tørresen, Ole K.; Lille-Langøy, Roger; Puntervoll, Pål; Goldstone, Jared V.; Jakobsen, Kjetill Sigurd; Stegeman, John; Goksøyr, Anders; Karlsen, Odd Andre (Peer reviewed; Journal article, 2018-07-10)Sensitivity to environmental stressors largely depend on the genetic complement of the organism. Recent sequencing and assembly of teleost fish genomes enable us to trace the evolution of defense genes in the largest and ... -
Mutational analysis of the pro-peptide of a marine intracellular subtilisin protease supports its role in inhibition
Bjerga, Gro Elin Kjæreng; Larsen, Øivind; Arsin, Hasan; Williamson, Adele Kim; Garcia-Moyano, Antonio; Leiros, Ingar; Puntervoll, Pål (Peer reviewed; Journal article, 2018-09)Intracellular subtilisin proteases (ISPs) have important roles in protein processing during the stationary phase in bacteria. Their unregulated protein degrading activity may have adverse effects inside a cell, but little ... -
SBMLmod: a Python-based web application and web service for efficient data integration and model simulation
Schäuble, Sascha; Stavrum, Anne-Kristin; Bockwoldt, Mathias; Puntervoll, Pål; Heiland, Ines (Peer reviewed; Journal article, 2017-06-24)Background: Systems Biology Markup Language (SBML) is the standard model representation and description language in systems biology. Enriching and analysing systems biology models by integrating the multitude of available ... -
Vaccine Candidate Double Mutant Variants of Enterotoxigenic Escherichia coli Heat-Stable Toxin
Zegeye, Ephrem Debebe; Diaz, Yuleima; Puntervoll, Pål (Journal article; Peer reviewed, 2022)Heat-stable enterotoxin (ST) producing enterotoxigenic Escherichia coli (ETEC) strains are among the top four enteropathogens associated with moderate-to-severe diarrhea in children under five years in low-to-middle income ... -
Virus-like particle-display of the enterotoxigenic Escherichia coli heat-stable toxoid STh-A14T elicits neutralizing antibodies in mice
Govasli Larsen, Morten Andreas; Diaz, Yuleima; Puntervoll, Pål (Peer reviewed; Journal article, 2019-09-09)Enterotoxigenic Escherichia coli (ETEC) causes diarrhoea by secreting enterotoxins into the small intestine. Human ETEC strains may secrete any combination of three enterotoxins: the heat-labile toxin (LT) and the heat-stable ...