Sentences with phrase «sequencing reads mapped»

To explore the kinetics of gene selection in vivo, we plotted the percentage of sequencing reads mapped to genes in the Bt genome over time and examined genes constituting > 0.2 % of total reads.

Not exact matches

The commercialization of DNA sequencing (the reading of an organism's code) and synthesis (the writing of that code) has accelerated since the mapping of the human genome was completed in 2003.

Competitors have to be good at everything — braille, cryptography, Java, origami, base 16, flag signals, integer sequences, tarot cards, map reading, and Mandarin Chinese.

In light of these findings and since tRNAs are repeat sequences themselves, the team had to devise a complex and stringent scheme with which they mapped the deep sequencing reads.

DNA sequencing and genome mapping can thus be compared to dividing a very long text into lots of small pieces that are read separately — letter by letter, or more exactly: nucleobase per nucleobase.

To avoid including reads sequenced from regions of the nuclear genome sharing high similarity with mitochondrial DNA (NUMTs), reads that did not map uniquely to the mitochondrial genome were discarded using SAMtools [32, 33].

After mapping, a custom bash function was used to remove reads with more than three mismatches compared to the mitochondrial DNA reference sequence; the revised Cambridge Reference Sequence (rCsequence; the revised Cambridge Reference Sequence (rCSequence (rCRS)[31].

And to do this, she used the latest technology to sequence the DNA — map its building blocks to read its genes.

MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads — Thomas Petersen — May 2017

Novel insertions of mobile elements into the sequenced genome are identified as clusters of reads that uniquely map to the reference genome with one arm and to ubiquitous sequence with the other arm.

We mapped sequencing reads to the Nvit1.0 assembly [15] using a TopHat2 [45] and Stampy [46], and then mapped reads which failed to align to the genome against the OGSv2 predicted transcriptome with bowtie2 [47] to improve mapping sensitivity (see methods for details).

We used a combination of TopHat2 [45] and Stampy [46] to map our sequencing reads to the reference scaffolds, in order to leverage the unique strengths of each program and maximize mapping success.

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

The data include sequence reads, their mappings to a reference human genome, and variations detected against the reference human genome.

ChIP - Seq sequencing reads were mapped to the human genome (GRCh37 / hg19) using Bowtie2 with default parameters (v2.1.0, [27]-RRB-.

For whole genome sequencing of individual samples, we've used Maq with some success to map, assemble, and call variants from Illumina / Solexa reads.

Fortunately, paired - end sequencing on Illumina offers a solution implemented by Maq some time ago — first, map all reads that you can without gaps, and then, look for gapped alignments in unplaced reads whose mate is mapped nearby.

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)»).

Reads are mapped to the previously sequenced XMRV genome corresponding to each of the samples, with the exception of reads from LNCaP, which are mapped to the 22Rv1 - associated genome (Genbank accession number FN692Reads are mapped to the previously sequenced XMRV genome corresponding to each of the samples, with the exception of reads from LNCaP, which are mapped to the 22Rv1 - associated genome (Genbank accession number FN692reads from LNCaP, which are mapped to the 22Rv1 - associated genome (Genbank accession number FN692043).

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.

We used Seqprep68 to identify paired sequences overlapping by at least 15 base pairs, and then mapped these reads to the mitochondrial DNA genome RSRS56 using BWA - 0.6 (ref.

This analysis was limited to sequence reads that mapped to the targeted chromosome X and Y SNPs with a mapping quality score of at least 37, where clusters of duplicate reads (as identified by orientation, and start and end position) were represented by the read with the highest sequence quality.

(c) The ratio Ry of the number of non-redundant sequence reads for each individual that mapped to human chromosome Y to the number of total reads that mapped to chromosomes X and Y, with the total number of X+Y reads and the 95 % confidence interval indicated.

These Book Projects with Grading Rubrics include: - Introduction - student reading record - new book jacket - pyramid diorama - act it out - letter to the author - dress - up character - salesperson - book critic - letter to friend - radio or television broadcast - comic strip - sing a song - character puppet - mobile - new words - Venn diagram - poster board - map with key places - make a web - create a new page - story sequence - advertise - story flip book - character map - book award - new ending - story chart - story map - postcard - story flag - letter to the author questions - character feeling - real or make - believe - character Venn diagram - fact finder - cause and effect - fact and opinions - event timeline - story quilt - book news - grading rubric These are GREAT for reading workshops.

Let Godzilla motivate your students to do some reading and mapping and sequencing and writing and graphing and listening and math and... Even Godzilla would be pleased to know it had that kind of impact!!

Once the RNA is sequenced the resulting reads can be mapped to the DNA reference assembly to identify and map the positions of genes and regulating elements.

Next, the True Depth camera reads the data and captures a randomized sequence of 2D images and depth maps which are then digitally signed and send to the Secure Enclave for comparison.