Results 1 to 10 of about 2,556,924 (316)
RNA Sequencing and Analysis [PDF]
Cold Spring Harbor Protocols, 2015 RNA sequencing (RNA-Seq) uses the capabilities of high-throughput sequencing methods to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing- and microarray-based methods, RNA-Seq provides far higher coverage and greater resolution of the dynamic nature of the transcriptome.
Kimberly R. Kukurba +1 more
openaire +3 more sources
Cross-Border Transmissions of the Delta Substrain AY.29 During Tokyo Olympic and Paralympic Games
Frontiers in Microbiology, 2022 Tokyo Olympic and Paralympic Games, postponed for the COVID-19 pandemic, were finally held in the summer of 2021. Just before the games, the Alpha variant was being replaced with the more contagious Delta variant.
Takahiko Koyama +6 more
doaj +1 more source
Chromosome-specific families in Vibrio genomes
Frontiers in Microbiology, 2014 We have compared chromosome-specific genes in a set of 18 finished Vibrio genomes, and, in addition, also calculated the pan- and core-genomes from a data set of more than 250 draft Vibrio genome sequences.
Oksana eLukjancenko +2 more
doaj +1 more source
HostPhinder: A Phage Host Prediction Tool
Viruses, 2016 The current dramatic increase of antibiotic resistant bacteria has revitalised the interest in bacteriophages as alternative antibacterial treatment. Meanwhile, the development of bioinformatics methods for analysing genomic data places high-throughput ...
Julia Villarroel +6 more
doaj +1 more source
Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios
BMC Bioinformatics, 2018 Background The adaptive immune response intrinsically depends on hypervariable human leukocyte antigen (HLA) genes. Concomitantly, correct HLA phenotyping is crucial for successful donor-patient matching in organ transplantation.
Maria Luisa Matey-Hernandez +3 more
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What Can We Learn from a Metagenomic Analysis of a Georgian Bacteriophage Cocktail?
Viruses, 2015 Phage therapy, a practice widespread in Eastern Europe, has untapped potential in the combat against antibiotic-resistant bacterial infections. However, technology transfer to Western medicine is proving challenging. Bioinformatics analysis could help to
Henrike Zschach +11 more
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Sequence complexity for biological sequence analysis [PDF]
Computers & Chemistry, 2000 A new statistical model for DNA considers a sequence to be a mixture of regions with little structure and regions that are approximate repeats of other subsequences, i.e. instances of repeats do not need to match each other exactly. Both forward- and reverse-complementary repeats are allowed.
Lloyd Allison +3 more
openaire +3 more sources
Bayesian prediction of microbial oxygen requirement [v1; ref status: indexed, http://f1000r.es/1m6]
F1000Research, 2013 Background: Prediction of the optimal habitat conditions for a given bacterium, based on genome sequence alone would be of value for scientific as well as industrial purposes. One example of such a habitat adaptation is the requirement for oxygen.
Dan B. Jensen, David W. Ussery
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Quantification of within-sample genetic heterogeneity from SNP-array data
Scientific Reports, 2017 Intra-tumour genetic heterogeneity (ITH) fosters drug resistance and is a critical hurdle to clinical treatment. ITH can be well-measured using multi-region sampling but this is costly and challenging to implement.
Pierre Martinez +5 more
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F1000Research, 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.
Lars-Gustav Snipen, David W Ussery
doaj +1 more source