Sentence examples for use a reference genome from inspiring English sources

We describe here how the pipeline functions to build a genetic map de novo, and then how it can use a reference genome.

There are several others, including: de novo transcriptome assembly [ 3] and de novo alternative splicing calling [ 4] from transcriptomic NGS data (RNA-seq); metagenome assembly [ 5] from metagenomic NGS data; and genomic variant detection [ 6] from genomic NGS data using a reference genome.

Briefly, contigs were assembled de novo from the short reads and were only oriented using a reference genome by anchoring.

We assembled the E-Pae strain 2250 and I-Pae Illumina datasets de novo (i.e. without using a reference genome) using Velvet 0.7.48 [57].

We had Roche assemble contigs de novo rather than by using a reference genome, developed an algorithm to assemble contigs to pseudomolecules by synteny to the genome of MG1655, and wrote a custom Perl program to find polymorphisms in the aligned genomes.

Stacks can identify loci not only de novo as described above but also using a reference genome.

By using a reference genome from the most closely related species, we converted most SNPs to successful assays.

In this paper we present a simple approach for deducing regulatory information in mammalian genomes with restricted sequence by using a reference genome.

The limitation of exon-intron boundaries prediction using a reference genome is that its success depends on the conservation between the two genomes.

Using a reference genome assembly as a guide, it is now possible to associate genetically mapped biomarkers with nearby candidate genes and their functional activities.

A disadvantage of using a reference genome for assigning markers to expected chromosomes is that blast errors may complicate the building process.