Sentences with phrase «genome deep sequencing»

The Ag1000G project is using whole genome deep sequencing to provide a high - resolution view of genetic variation in natural populations of A. gambiae.

Not exact matches

To find out more about how they manage to survive, Brandon Briggs at Miami University in Oxford, Ohio, and Frederick Colwell at Oregon State University in Corvallis have sequenced and compared genomes belonging to one particular class of deep life — Firmicutes bacteria — sampled 21, 40 and 554 metres below the floor of the Andaman Sea, west of Thailand.

Described in the January 7th issue of Neuron, the technique uses «deep,» highly sensitive whole - genome sequencing of single neurons and a new technology that identifies inserted bits of DNA caused by retrotransposons, one of several kinds of so - called somatic mutations that can arise as the brain develops.

A team of Spanish researchers, coordinated by the Spanish National Research Council (CSIC), has started to sequence the genome of the global deep ocean.

«Researchers sequence the genome of global deep ocean.»

Here they photographed organisms from deep - water samples and used technology to sequence the genomes of these single - celled organisms.

They then comprehensively analyzed the changes in the whole genome and epigenome using next generation deep sequencing.

Deeper understanding — and new medical treatments — requires many more sequenced genomes, as well as cheaper and faster sequencing methods.

The poor apparent coverage was the result of high sequence divergence of the TMAdV genome from SAdV - 18, which hindered the identification of most of the 16,524 actual deep sequencing reads derived from TMAdV (Fig. 2B, red).

To facilitate whole - genome sequencing of TMAdV, we prepared amplified cDNA / DNA libraries for deep sequencing from lung tissue and a lung swab sample from 2 different monkeys using previously published protocols [23], [52].

To facilitate whole - genome sequencing of TMAdV, deep sequencing of a lung swab from one affected titi monkey and lung tissue from another affected monkey was performed.

The actual coverage achieved by deep sequencing as determined by alignments to the fully sequenced genome of TMAdV is much higher (red).

The sequence will provide a deeper understanding of the genome architecture and become a resource for biomarker discovery and development of diagnostic tools.

As is often the case for yeast, the ability to sequence and analyze whole genomes at very deep coverage has yielded broad insights on eukaryotic genome evolution.

Over 100,000 genomes of individual humans (based on various estimates) have been sequenced allowing for deep insights into what makes individuals and families unique and what causes disease in each of us.

Ongoing projects include the sequencing and analysis of > 50,000 deep human genomes — an unprecedented amount of data.

From a total of 10,896,742 raw deep sequencing reads, 40,844 reads were mapped to the 22Rv1 - associated XMRV genome (Fig. 5, «LNCaP (from 2003)»), and the resulting consensus assembly was found to be identical to 22Rv1 - associated XMRV (Fig. 6, «LNCaP (from 2003, consensus)»).

To characterize their viral genomes in greater depth, we analyzed RNA extracts from these 3 samples by unbiased next - generation, or «deep» sequencing.

SNP analysis of deep sequencing reads corresponding to the XMRV genomes of 22Rv1 (A) and LNCaP (B), as well as the mitochondrial genomes of these two cell lines (C) was performed.

A consensus sequence based on mapped deep sequencing reads was generated for each of the prostate cancer XMRV genomes and used to correct errors in the previously published sequences, with the requirement of no ambiguity at each discrepant nucleotide position.

Unlike profiling strategies involving whole or partial genome sequencing of mitochondrial DNA [55], [56], here the ∼ 16.5 kb mitochondrial genome is assembled from only RNA - derived deep sequencing reads.

It is therefore striking that the three most common SNP variants identified in LNCaP - and 22Rv1 - associated XMRV by deep sequencing, A790G, A4264G, and C8122G, are also present in the 3 prostate cancer - associated XMRV genomes.

Both of these cell line - associated XMRV genomes were found to exhibit a lower degree of intra-strain variation than previously reported for XMRV from 22Rv1 cells [20], with only 19 SNPs detected in the 22Rv1 - associated XMRV genome at the 3 % frequency cutoff by deep sequencing, and only 25 SNPs in the LNCaP - associated genome (Fig. 7A; Table S1).

Furthermore, unbiased deep sequencing analysis of 3 XMRV - positive samples (VP35, VP42, and VP62), revealed that the entire viral genome was present (Fig. 5).

Nevertheless, the SNP data generated from deep sequencing reveal that the consensus sequences of the XMRV VP35, VP42, and VP62 genomes are in fact identical to each other and to the consensus 22Rv1 - associated XMRV strain (Fig. 6).

ChIP - Seq (ChIP followed by deep sequencing of DNA) is an extension of ChIP technology to determine the chromatin enrichment of a transcription factor on a genome - wide scale.

By SNP analysis, single nucleotide differences between the sequences of 22Rv1 - associated XMRV and XMRV genomes detected in prostate cancer tissues [VP35, VP42, and VP62 (2006)-RSB-(red lollipops) are corrected by the deep sequencing coverage data (black lollipops).

To gain a deeper understanding of how mosquito populations are evolving, here we sequenced the genomes of 765 specimens of Anopheles gambiae and Anopheles coluzzii sampled from 15 locations across Africa, and identified over 50 million single nucleotide polymorphisms within the accessible genome.

The ∼ 16.5 kb mitochondrial genomes of 22Rv1 and LNCaP were assembled from 555,977 and 171,418 mtRNA deep sequencing reads, respectively.

Raw single reads (and their mate pairs) from deep sequencing libraries corresponding to 3 XMRV - positive samples [VP35, 14,589,296 reads; VP42, 14,573,990 reads; and VP62 (2006), 18,308,352 reads] and 3 XMRV - negative samples [VP10, 5,270,536 reads; VP30, 4,378,204 reads; and VP62 (2012), 3,985,692 reads] were then stripped of adapter and primer sequences and aligned to the CRS mitochondrial genome using BLASTn (word size = 11, E-value = 1 × 10 − 10).

We use deep learning to diagnose diseases from radiology and pathology imaging, and to create personalized cancer treatment plans from histopathology imaging and genome sequences.