New taxonomic assignment for a dinosaur sauropod bone from Cuba
Sign Up to like & getrecommendations! Published in 2019 at "Historical Biology"
DOI: 10.1080/08912963.2019.1661406
Abstract: ABSTRACT The fossil-bearing Jagua Formation of western Cuba was deposited during the early Late Jurassic (middle to late Oxfordian) in the marine corridor developed between western Laurasia and Gondwana, providing a rich assemblage of terrestrial… read more here.
Keywords: new taxonomic; dinosaur sauropod; dinosaur; assignment dinosaur ... See more keywords
Fast and sensitive taxonomic assignment to metagenomic contigs
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DOI: 10.1093/bioinformatics/btab184
Abstract: Abstract Summary MMseqs2 taxonomy is a new tool to assign taxonomic labels to metagenomic contigs. It extracts all possible protein fragments from each contig, quickly retains those that can contribute to taxonomic annotation, assigns them… read more here.
Keywords: metagenomic contigs; mmseqs2 taxonomy; assignment metagenomic; fast sensitive ... See more keywords
A multi-task CNN learning model for taxonomic assignment of human viruses
Sign Up to like & getrecommendations! Published in 2021 at "BMC Bioinformatics"
DOI: 10.1186/s12859-021-04084-w
Abstract: Background Taxonomic assignment is a key step in the identification of human viral pathogens. Current tools for taxonomic assignment from sequencing reads based on alignment or alignment-free k-mer approaches may not perform optimally in cases… read more here.
Keywords: multi task; assignment; taxonomic assignment; learning model ... See more keywords
An improved statistical model for taxonomic assignment of metagenomics
Sign Up to like & getrecommendations! Published in 2018 at "BMC Genetics"
DOI: 10.1186/s12863-018-0680-1
Abstract: BackgroundWith the advances in the next-generation sequencing technologies, researchers can now rapidly examine the composition of samples from humans and their surroundings. To enhance the accuracy of taxonomy assignments in metagenomic samples, we developed a… read more here.
Keywords: assignment; improved statistical; statistical model; taxonomic assignment ... See more keywords
Be positive: customized reference databases and new, local barcodes balance false taxonomic assignments in metabarcoding studies
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DOI: 10.7717/peerj.14616
Abstract: Background In metabarcoding analyses, the taxonomic assignment is crucial to place sequencing data in biological and ecological contexts. This fundamental step depends on a reference database, which should have a good taxonomic coverage to avoid… read more here.
Keywords: reference database; reference databases; taxonomic assignment; database ... See more keywords
How reliable is metabarcoding for pollen identification? An evaluation of different taxonomic assignment strategies by cross-validation
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DOI: 10.7717/peerj.16567
Abstract: Metabarcoding is a powerful tool, increasingly used in many disciplines of environmental sciences. However, to assign a taxon to a DNA sequence, bioinformaticians need to choose between different strategies or parameter values and these choices… read more here.
Keywords: taxonomic assignment; database; species level; cross validation ... See more keywords
Tackling critical parameters in metazoan meta-barcoding experiments: a preliminary study based on coxI DNA barcode
Sign Up to like & getrecommendations! Published in 2018 at "PeerJ"
DOI: 10.7717/peerj.4845
Abstract: Nowadays DNA meta-barcoding is a powerful instrument capable of quickly discovering the biodiversity of an environmental sample by integrating the DNA barcoding approach with High Throughput Sequencing technologies. It mainly consists of the parallel reading… read more here.
Keywords: critical parameters; barcoding experiments; dna meta; meta barcoding ... See more keywords