Optimizing depth and type of high‐throughput sequencing data for microsatellite discovery
Sign Up to like & getrecommendations! Published in 2019 at "Applications in Plant Sciences"
DOI: 10.1002/aps3.11298
Abstract: Premise Simple sequence repeat (SSR) markers (microsatellites) are a mainstay of many labs, especially when working on a limited budget, carrying out preliminary analyses, and in teaching. Whether SSRs mined from plant genomes or transcriptomes… read more here.
Keywords: optimizing depth; sequencing data; discovery; throughput sequencing ... See more keywords
Bioinformatics Approaches to Predict Drug Responses from Genomic Sequencing.
Sign Up to like & getrecommendations! Published in 2018 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-7493-1_14
Abstract: Fulfilling the promises of precision medicine will depend on our ability to create patient-specific treatment regimens. Therefore, being able to translate genomic sequencing into predicting how a patient will respond to a given drug is… read more here.
Keywords: genomic sequencing; sequencing data; bioinformatics approaches; approaches predict ... See more keywords
Bioinformatic Analysis of MicroRNA Sequencing Data.
Sign Up to like & getrecommendations! Published in 2018 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-7710-9_8
Abstract: The vital role of microRNAs (miRNAs) involved in gene expression regulation has been confirmed in many biological processes. With the growing power and reducing cost of next-generation sequencing, more and more researchers turn to apply… read more here.
Keywords: sequencing data; analysis microrna; analysis; microrna sequencing ... See more keywords
Evaluation of Whole Genome Sequencing Data.
Sign Up to like & getrecommendations! Published in 2019 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-9151-8_15
Abstract: Whole genome sequencing (WGS) can provide comprehensive insights into the genetic makeup of lymphomas. Here we describe a selection of methods for the analysis of WGS data, including alignment, identification of different classes of genomic… read more here.
Keywords: sequencing data; whole genome; evaluation whole; biology ... See more keywords
A comprehensive evaluation of single-end sequencing data analyses for environmental microbiome research.
Sign Up to like & getrecommendations! Published in 2021 at "Archives of microbiology"
DOI: 10.1007/s00203-021-02597-9
Abstract: Illumina sequencing platforms have been widely used for amplicon-based environmental microbiome research. Analyses of amplicon data of environmental samples, generated from Illumina MiSeq platform illustrate the reverse (R2) reads in the PE datasets to have… read more here.
Keywords: sequencing data; microbiome research; environmental microbiome; single end ... See more keywords
Identifying key genes associated with Hirschsprung’s disease based on bioinformatics analysis of RNA-sequencing data
Sign Up to like & getrecommendations! Published in 2017 at "World Journal of Pediatrics"
DOI: 10.1007/s12519-017-0002-0
Abstract: BackgroundHirschsprung’s disease (HSCR) is a type of megacolon induced by deficiency or dysfunction of ganglion cells in the distal intestine and is associated with developmental disorders of the enteric nervous system. To explore the mechanisms… read more here.
Keywords: sequencing data; analysis; disease; key genes ... See more keywords
Next-generation sequencing data used to determine the mitochondrial genomes and a preliminary phylogeny of Verophasmatodea insects
Sign Up to like & getrecommendations! Published in 2017 at "Journal of Asia-pacific Entomology"
DOI: 10.1016/j.aspen.2017.04.012
Abstract: Abstract We used Illumina next-generation sequencing data to generate the nearly complete mitochondrial genomes (mitogenomes) of three phasmatodeans (Megalophasma granulata, Calvisia medogensis, and Phyllium tibetense) without the aid of additional techniques such as long-range PCR… read more here.
Keywords: insects; sequencing data; mitochondrial genomes; next generation ... See more keywords
Both simulation and sequencing data reveal coinfections with multiple SARS-CoV-2 variants in the COVID-19 pandemic
Sign Up to like & getrecommendations! Published in 2022 at "Computational and Structural Biotechnology Journal"
DOI: 10.1016/j.csbj.2022.03.011
Abstract: SARS-CoV-2 is a single-stranded RNA betacoronavirus with a high mutation rate. The rapidly emerging SARS-CoV-2 variants could increase transmissibility and diminish vaccine protection. However, whether coinfection with multiple SARS-CoV-2 variants exists remains controversial. This study… read more here.
Keywords: sars cov; data reveal; cov variants; multiple sars ... See more keywords
New primers, taxonomic database and cut-off value for processing nxrB gene high-throughput sequencing data by MOTHUR.
Sign Up to like & getrecommendations! Published in 2020 at "Journal of microbiological methods"
DOI: 10.1016/j.mimet.2020.105939
Abstract: To analyse the diversity of Nitrospira with functional nxrB genes, we designed and optimized a new primer set, Nxr-f27/Nxr-r617, and constructed a database for taxonomic classification. We also propose a cut-off value for processing the… read more here.
Keywords: sequencing data; value processing; cut value; data mothur ... See more keywords
Distinct relationships between fluorescence in situ hybridization and 16S rRNA gene- and amplicon-based sequencing data of bacterioplankton lineages.
Sign Up to like & getrecommendations! Published in 2019 at "Systematic and applied microbiology"
DOI: 10.1016/j.syapm.2019.06.005
Abstract: Catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) and amplicon sequencing of the total (16S rRNA gene) and potentially active (16S rRNA transcripts), community are the major state of the art approaches for assessing the… read more here.
Keywords: sequencing data; bacterioplankton; amplicon; amplicon sequencing ... See more keywords
Combining Genomic, Phenotypic and Sanger Sequencing Data to Elucidate the Phylogeny of the Two-Clawed Spiders (Dionycha).
Sign Up to like & getrecommendations! Published in 2021 at "Molecular phylogenetics and evolution"
DOI: 10.1016/j.ympev.2021.107327
Abstract: The importance of morphology in the phylogenomic era has recently gained attention, but relatively few studies have combined both types of information when inferring phylogenetic relationships. Sanger sequencing legacy data can also be important for… read more here.
Keywords: sequencing data; genomic phenotypic; phenotypic sanger; combining genomic ... See more keywords