Zobrazeno 1 - 10
of 17
pro vyhledávání: '"Lars-Gustav Snipen"'
Autor:
Melcy Philip, Knut Rudi, Ida Ormaasen, Inga Leena Angell, Ragnhild Pettersen, Nigel B. Keeley, Lars-Gustav Snipen
Publikováno v:
BMC Bioinformatics, Vol 25, Iss 1, Pp 1-16 (2024)
Abstract Background With the emergence of Oxford Nanopore technology, now the on-site sequencing of 16S rRNA from environments is available. Due to the error level and structure, the analysis of such data demands some database of reference sequences.
Externí odkaz:
https://doaj.org/article/f162a6899a9b4bf6851e8fa5c6698a81
Autor:
Lars-Gustav Snipen, David W Ussery
Publikováno v:
F1000Research, Vol 1 (2013)
The study of microbial pangenomes relies on the computation of gene families, i.e. the clustering of coding sequences into groups of essentially similar genes. There is no standard approach to obtain such gene families. Ideally, the gene family compu
Externí odkaz:
https://doaj.org/article/71a0cdc1239347da9bf87c3b52e97709
Autor:
Lars-Gustav Snipen, David W Ussery
Publikováno v:
F1000Research, Vol 1 (2012)
The study of microbial pangenomes relies on the computation of gene families, i.e. the clustering of coding sequences into groups of essentially similar genes. There is no standard approach to obtain such gene families. Ideally, the gene family compu
Externí odkaz:
https://doaj.org/article/9072d73fe332497f8304a7dbc9feaf9f
Autor:
Simen Rød Sandve, Knut Rudi, Phillip B. Pope, Jon Olav Vik, Inga Leena Angell, Lars-Gustav Snipen
Publikováno v:
Applied and Environmental Microbiology. 84
Gut microbiota associations through habitat transitions are fundamentally important yet poorly understood. One such habitat transition is the migration from freshwater to saltwater for anadromous fish, such as salmon. The aim of the current work was
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cfb14f7da004fbe43c5dda62f2481319
https://doi.org/10.1128/aem.01974-17
https://doi.org/10.1128/aem.01974-17
Publikováno v:
Bioinformatics. 31:1708-1715
Motivation: The explosion of whole-genome sequencing (WGS) as a tool in the mapping and understanding of genomes has been accompanied by an equally massive report of tools and pipelines for the analysis of DNA copy number variation (CNV). Most curren
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b5dbe752b2ca7f818a1b080f7caee2f4
https://doi.org/10.1093/bioinformatics/btv070
https://doi.org/10.1093/bioinformatics/btv070
Autor:
Ida Rud, Lars-Gustav Snipen, Kristian Hovde Liland, Ellen Færgestad Mosleth, Anette McLeod, Lars Axelsson, Filipe Branco dos Santos
Publikováno v:
PLoS ONE, 12(11):e0187542. Public Library of Science
PLoS ONE
PLoS ONE, Vol 12, Iss 11, p e0187542 (2017)
PLoS ONE
PLoS ONE, Vol 12, Iss 11, p e0187542 (2017)
Effects of glucose availability were investigated in Lactobacillus sakei strains 23K and LS25 cultivated in anaerobic, glucose-limited chemostats set at high (D = 0.357 h-1) and low (D = 0.045 h-1) dilution rates. We observed for both strains a shift
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::87c86d39d77d03a0e1a357570c7f965d
https://dare.uva.nl/personal/pure/en/publications/effects-of-glucose-availability-in-lactobacillus-sakei-metabolic-change-and-regulation-of-the-proteome-and-transcriptome(25dad890-b089-4e7e-ab6a-795c01e1602f).html
https://dare.uva.nl/personal/pure/en/publications/effects-of-glucose-availability-in-lactobacillus-sakei-metabolic-change-and-regulation-of-the-proteome-and-transcriptome(25dad890-b089-4e7e-ab6a-795c01e1602f).html
Publikováno v:
BMC Bioinformatics
Background Taxonomic classification based on the 16S rRNA gene sequence is important for the profiling of microbial communities. In addition to giving the best possible accuracy, it is also important to quantify uncertainties in the classifications.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a4610772c3bf4af80be4eee0e2acef20
Autor:
Lars-Gustav Snipen, Martin Malmstrøm, Walter Salzburger, Alexander J. Nederbragt, Kjetill S. Jakobsen, Ole K. Tørresen, Sissel Jentoft, Thomas F. Hansen, Reinhold Hanel, Helle Tessand Baalsrud, Nils Christian Stenseth, Michael Matschiner, Bastiaan Star
Publikováno v:
Nature Genetics
Teleost fishes constitute the most species-rich vertebrate clade and exhibit extensive genetic and phenotypic variation, including diverse immune defense strategies. The genomic basis of a particularly aberrant strategy is exemplified by Atlantic cod
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d450bf8c0fca2f9a449938e2ed2ea30b
https://pubmed.ncbi.nlm.nih.gov/27681288
https://pubmed.ncbi.nlm.nih.gov/27681288
Publikováno v:
SoftwareX
SoftwareX, Vol 5, Iss, Pp 227-233 (2016)
SoftwareX, Vol 5, Iss, Pp 227-233 (2016)
When a series of Bernoulli trials occur within a fixed time frame or limited space, it is often interesting to assess if the successful outcomes have occurred completely at random, or if they tend to group together. One example, in genetics, is detec
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::809f57ec386ee9f9fe6e2fd12e32a960
https://hdl.handle.net/11250/2473919
https://hdl.handle.net/11250/2473919
Publikováno v:
BMC Bioinformatics
Background The need for precise and stable taxonomic classification is highly relevant in modern microbiology. Parallel to the explosion in the amount of sequence data accessible, there has also been a shift in focus for classification methods. Previ
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e6bfd18efd25a19ab4380a39286cc5ba
https://doi.org/10.1186/s12859-015-0647-4
https://doi.org/10.1186/s12859-015-0647-4