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Table representation of search results timeline featuring number of search results per year.

Year Number of Results
1997 1
1999 1
2000 2
2001 3
2002 14
2003 14
2004 16
2005 23
2006 35
2007 36
2008 36
2009 37
2010 35
2011 60
2012 78
2013 67
2014 100
2015 139
2016 168
2017 184
2018 232
2019 286
2020 345
2021 353
2022 351
2023 108
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2,430 results
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PlasmidFinder and In Silico pMLST: Identification and Typing of Plasmid Replicons in Whole-Genome Sequencing (WGS).
Carattoli A, Hasman H. Carattoli A, et al. Methods Mol Biol. 2020;2075:285-294. doi: 10.1007/978-1-4939-9877-7_20. Methods Mol Biol. 2020. PMID: 31584170
PlasmidFinder and in silico plasmid multiLocus sequence typing (pMLST) are two easy-to-use web tools for detection and characterization of plasmid sequences in whole-genome sequencing (WGS) data from Enterobacteriaceae. ...PlasmidFinder i …
PlasmidFinder and in silico plasmid multiLocus sequence typing (pMLST) are two easy-to-use web tools for detection and charact …
Mobilization of the nonconjugative virulence plasmid from hypervirulent Klebsiella pneumoniae.
Xu Y, Zhang J, Wang M, Liu M, Liu G, Qu H, Liu J, Deng Z, Sun J, Ou HY, Qu J. Xu Y, et al. Genome Med. 2021 Jul 22;13(1):119. doi: 10.1186/s13073-021-00936-5. Genome Med. 2021. PMID: 34294113 Free PMC article.
Transconjugants obtained from conjugation assays were confirmed by XbaI and S1 nuclease pulsed-field gel electrophoresis, PCR detection and/or whole-genome sequencing. The plasmid stability of the transconjugants was evaluated by serial culture. ...The level …
Transconjugants obtained from conjugation assays were confirmed by XbaI and S1 nuclease pulsed-field gel electrophoresis, PCR detection and/ …
Bacterial genome sequencing in clinical microbiology: a pathogen-oriented review.
Tagini F, Greub G. Tagini F, et al. Eur J Clin Microbiol Infect Dis. 2017 Nov;36(11):2007-2020. doi: 10.1007/s10096-017-3024-6. Epub 2017 Jun 21. Eur J Clin Microbiol Infect Dis. 2017. PMID: 28639162 Free PMC article. Review.
In recent years, whole-genome sequencing (WGS) has been perceived as a technology with the potential to revolutionise clinical microbiology. ...For each pathogen group, we focused on five different aspects: the genome characteristics, the most common …
In recent years, whole-genome sequencing (WGS) has been perceived as a technology with the potential to revolutionise c …
In Silico Serotyping Based on Whole-Genome Sequencing Improves the Accuracy of Shigella Identification.
Wu Y, Lau HK, Lee T, Lau DK, Payne J. Wu Y, et al. Appl Environ Microbiol. 2019 Mar 22;85(7):e00165-19. doi: 10.1128/AEM.00165-19. Print 2019 Apr 1. Appl Environ Microbiol. 2019. PMID: 30709819 Free PMC article.
Using this information, we developed ShigaTyper, an automated workflow that utilizes limited computational resources to accurately and rapidly determine 59 Shigella serotypes using Illumina paired-end whole-genome sequencing (WGS) reads. Shigella serotype det …
Using this information, we developed ShigaTyper, an automated workflow that utilizes limited computational resources to accurately and rapid …
Exome sequencing covers >98% of mutations identified on targeted next generation sequencing panels.
LaDuca H, Farwell KD, Vuong H, Lu HM, Mu W, Shahmirzadi L, Tang S, Chen J, Bhide S, Chao EC. LaDuca H, et al. PLoS One. 2017 Feb 2;12(2):e0170843. doi: 10.1371/journal.pone.0170843. eCollection 2017. PLoS One. 2017. PMID: 28152038 Free PMC article.
Here, we use an in silico analysis to predict the analytic sensitivity of WES using pathogenic variants identified on targeted NGS panels as a reference. ...Results from this validation confirmed that 98.6% (91,743,296/93,062,298) of pathogenic variants demonstrated …
Here, we use an in silico analysis to predict the analytic sensitivity of WES using pathogenic variants identified on targeted …
Whole genome and in-silico analyses of G1P[8] rotavirus strains from pre- and post-vaccination periods in Rwanda.
Rasebotsa S, Mwangi PN, Mogotsi MT, Sabiu S, Magagula NB, Rakau K, Uwimana J, Mutesa L, Muganga N, Murenzi D, Tuyisenge L, Jaimes J, Esona MD, Bowen MD, Mphahlele MJ, Seheri ML, Mwenda JM, Nyaga MM. Rasebotsa S, et al. Sci Rep. 2020 Aug 10;10(1):13460. doi: 10.1038/s41598-020-69973-1. Sci Rep. 2020. PMID: 32778711 Free PMC article.
To gain insights into the overall genetic make-up and evolution of Rwandan G1P[8] strains pre- and post-vaccine introduction, rotavirus positive fecal samples collected between 2011 and 2016 from children under the age of 5 years as part of ongoing surveillance were genotyped wit …
To gain insights into the overall genetic make-up and evolution of Rwandan G1P[8] strains pre- and post-vaccine introduction, rotavirus posi …
Comparison of actionable events detected in cancer genomes by whole-genome sequencing, in silico whole-exome and mutation panels.
Ramarao-Milne P, Kondrashova O, Patch AM, Nones K, Koufariotis LT, Newell F, Addala V, Lakis V, Holmes O, Leonard C, Wood S, Xu Q, Mukhopadhyay P, Naeini MM, Steinfort D, Williamson JP, Bint M, Pahoff C, Nguyen PT, Twaddell S, Arnold D, Grainge C, Basirzadeh F, Fielding D, Dalley AJ, Chittoory H, Simpson PT, Aoude LG, Bonazzi VF, Patel K, Barbour AP, Fennell DA, Robinson BW, Creaney J, Hollway G, Pearson JV, Waddell N. Ramarao-Milne P, et al. ESMO Open. 2022 Aug;7(4):100540. doi: 10.1016/j.esmoop.2022.100540. Epub 2022 Jul 15. ESMO Open. 2022. PMID: 35849877 Free PMC article.
Multigene panels are used in clinical practice for detecting targetable mutations. However, the value of clinical whole-exome sequencing (WES) and whole-genome sequencing (WGS) for cancer care is less defined, specifically as the majority of var …
Multigene panels are used in clinical practice for detecting targetable mutations. However, the value of clinical whole-exome sequ …
In silico identification of variations in microRNAs with a potential impact on dairy traits using whole ruminant genome SNP datasets.
Bourdon C, Boussaha M, Bardou P, Sanchez MP, Le Guillou S, Tribout T, Larroque H, Boichard D, Rupp R, Le Provost F, Tosser-Klopp G. Bourdon C, et al. Sci Rep. 2021 Oct 1;11(1):19580. doi: 10.1038/s41598-021-98639-9. Sci Rep. 2021. PMID: 34599210 Free PMC article.
This study leads to the detection of microRNA genetic variants of interest in the context of dairy production, taking advantage of whole genome data to identify microRNA genetic variants expressed in the mammary gland and localized in dairy QTLs....
This study leads to the detection of microRNA genetic variants of interest in the context of dairy production, taking advantage of whole …
Reconstructing organisms in silico: genome-scale models and their emerging applications.
Fang X, Lloyd CJ, Palsson BO. Fang X, et al. Nat Rev Microbiol. 2020 Dec;18(12):731-743. doi: 10.1038/s41579-020-00440-4. Epub 2020 Sep 21. Nat Rev Microbiol. 2020. PMID: 32958892 Free PMC article. Review.
Escherichia coli is considered to be the best-known microorganism given the large number of published studies detailing its genes, its genome and the biochemical functions of its molecular components. ...These genome-scale models (GEMs) now enable us to develop pan- …
Escherichia coli is considered to be the best-known microorganism given the large number of published studies detailing its genes, its ge …
Isolation, complete genome sequencing and in silico genome mining of Burkholderia for secondary metabolites.
Alam K, Zhao Y, Lu X, Gong K, Zhong L, Hao J, Islam MM, Islam S, Li G, Zhang Y, Li R, Li A. Alam K, et al. BMC Microbiol. 2022 Dec 30;22(1):323. doi: 10.1186/s12866-022-02692-x. BMC Microbiol. 2022. PMID: 36581815 Free PMC article.
China and verified by comparative genetic analysis to belong to Burkholderia. The complete genome of Burkholderia strain S-53 is 8.2 Mbps in size with an average G + C content of 66.35%. Its taxonomy was both characterized by 16S rRNA- and whole gen …
China and verified by comparative genetic analysis to belong to Burkholderia. The complete genome of Burkholderia strain S …
2,430 results