Sentences with phrase «reference sequence»

Areas of the genome that are highly variable are assembled using the default reference sequence at this time.

Using the coordinate mappings of the 5 ′ and 3 ′ adjacent chain - blocks of each chain - gap, the non-aligning reference sequence of a chain - gap is inserted into the query genome at the corresponding position, where placed gaps are oriented relative to the genome they are placed in.

(A) Full - length genome sequence of SARSr - CoV Rs4084 was used as query sequence and RsSHC014, Rf4092 and Rs4081 as reference sequences.

Night after night Rienhoff tediously compared his daughter's DNA sequence with reference sequences stored in several major genomic databases — Ensembl, Heidelberg, and the UCSC Genome Bioinformatics gene bank, among others.

Using SHIMS, the lab greatly improved the human X reference sequence, accurately assembling three large amplicons, identifying previously unknown palindromes, and ultimately shortening the entire length of the sequence by eliminating four major gaps.

DNA barcoding is an approach to the study of biodiversity that involves sequencing a standard region from the genome of an unidentified specimen and comparing it to a library of identified reference sequences representing many species.

These non-aligning reference sequences are absent from the query and are either the result of DNA gain in the reference or DNA loss in the query.

Using simulations, we show Karp is accurate across a variety of read lengths, reference sequence lengths, sample depths, and when samples contain reads originating from organisms absent from the reference.

Metabarcoding works by comparing short genetic sequence «markers» from unidentified biological specimens to libraries of known reference sequences.

One skeleton from Denmark (Jorgen 625) showed extraordinary preservation of the pathogen DNA, allowing a genome reconstruction without using a modern reference sequence, which was never done before for an ancient organism's genome.

Ten years ago, the International Barley Genome Sequencing Consortium, which is led by Nils Stein of the Leibniz Institute of Plant Genetics and Crop Plant Research in Germany, set out to assemble a complete reference sequence of the barley genome.

«As the first reference sequence of the sunflower genome, it's quite the accomplishment,» said paper co-author John M. Burke, professor of plant biology and member of the UGA Plant Center.

The size and complexity of their genomes (∼ 20 — 40 Gb, 2n = 24) have delayed the arrival of a well - annotated reference sequence.

«A fully assembled reference sequence available for researchers worldwide will have a major impact on research into salmon and other salmonids, such as rainbow trout.»

The human genome reference sequence remains incomplete due to the challenge of assembling long tracts of near - identical tandem repeats, or satellite DNAs, that are highly enriched in centromeric regions.

However, to render such a comparison valid, the lab had to upgrade the human X reference sequence, which was originally assembled as a mosaic of sequences from the X chromosomes of at least 16 people.

Incompatibility between the two software packages used caused some variants that the Ethiopian man shared with Europeans (whose DNA forms a large chunk of the human reference sequence) to be removed from the analysis.

It is the first time scientists have reconstructed an ancient genome without a reference sequence (de novo) due to the extraordinary preservation of the medieval pathogen's DNA.

Participants at the 10 June conference in Canada will be discussing possibilities for continued international collaboration based on the reference sequence.

These important updates will now be incorporated into the reference sequence of the human X for use by the greater scientific community.

The success of this approach is in part dependent on the completeness of the library of reference sequences.

The sequenced pieces can then be compared to a well - defined «reference sequence» to identify differences between the two codes.

Overlapping reads aligning to SAdV - 18 were used to assemble portions of the TMAdV genome with Geneious software (version 3.6.5)[54], employing the SAdV - 18 genome as a reference sequence and requiring a 20 - bp minimum overlap and 95 % overlap identity.

Let us take as a starting point a specified list of positions, assumed to be correct, at which the nucleotides in the individual's sequence differ from the human reference sequence.

Using simulations, we show the method is accurate across a variety of read lengths, with different length reference sequences, at different sample depths, and when samples contain reads originating from organisms absent from the reference.

The E. guineensis (pisifera) and E. oleifera genomes were de novo assembled and represent reference sequences.

Alignment of sequencing reads to the reference sequence using proprietary GEM alignment pipeline

Complete Genomics does not produce assemblies (evidence intervals) for regions of the genome where the mapped reads are highly consistent with the reference sequence.

This presents alignment difficulties and numerous artifact insertions / deletions relative to the reference sequence.

To directly select molecules for sequencing, we used dynamic time warping to match reads to reference sequences.

«The historic effort to produce a reference sequence of the human genome was successfully completed in April 2003.

UCSC Genome Browser; reference sequences and working draft assemblies for a large collection of genomes.

Accurate characterization and genotyping of the extremely variable MHC loci are challenging especially without a reference sequence.

The distance between Mezmaiskaya and a particular modern human sequence known as the reference sequence (Anderson et al. 1981) was 22, compared to 27 for the first Neandertal.

NCBI provides Gene, Online Mendelian Inheritance in Man, the Molecular Modeling Database (3D protein structures), dbSNP (a database of single - nucleotide polymorphisms), the Reference Sequence Collection, a map of the human genome, and a taxonomy browser, and coordinates with the National Cancer Institute to provide the Cancer Genome Anatomy Project.