whole-genome DNA sequencing
Targeted or whole genome sequencing of formalin fixed tissue samples: potential applications in cancer genomics
... Performing sequencing analyses using DNA isolated from FFPE samples is technically ...challenging. DNA extracted from FFPE blocks is highly variable due to DNA damage introduced by the ...
19
Whole genome bisulfite sequencing of cell free DNA and its cellular contributors uncovers placenta hypomethylated domains
... of DNA hypomethylation as a method for fetal DNA enrichment in ccf DNA derived from the plasma of pregnant ...ccf DNA from pregnant plasma were consistent with the re- gions we identified in ...
11
Circulating Tumour DNA in Muscle-Invasive Bladder Cancer.
... amplicon sequencing (TAm-Seq) using a bladder cancer-specific panel of eight genes to detect mutant DNA in TUR tumour tissue, plasma, urinary cell pellet (UCP), and urinary supernatant ...shallow ...
14
Genomic sequencing in clinical trials
... expense, whole gen- ome sequencing, in which the entire genome is sequenced, is an arduous and costly methodology to ...of DNA sequence data from individual human subjects, the more expensive ...
10
A protocol for the identification and validation of novel genetic causes of kidney disease
... parallel sequencing (MPS) from ap- proximately 2005 [14] has arguably been the next greatest advance since the development of Sanger sequencing in the late 1970s [15, ...generation sequencing (NGS) ...
10
Mosquito borne Inkoo virus in northern Sweden isolation and whole genome sequencing
... RT-PCR was performed on the nucleic acid extracts with Orthobunyavirus genus-primers (Eurofins Genomics, Ebersberg, Germany) see Additional file 1: Table S1 [25, 26]. For Orthobunyavirus positive sam- ples, INKV specific ...
9
Whole-genome sequencing in bacteriology: state of the art
... high-throughput sequencing. A number of sequencing techniques have been subsequently introduced making bacterial genome sequencing significantly cheaper and ...for sequencing of large ...
9
Whole-Exome/Genome Sequencing and Genomics
... The use of genomics in the prevention of genetic conditions currently involves pro- viding accurate genetic counseling to at- risk individuals so that they can use this information for family planning. Some couples ...
7
Aging as Accelerated Accumulation of Somatic Variants: Whole-Genome Sequencing of Centenarian and Middle-Aged Monozygotic Twin Pairs
... Genomic DNA was extracted from whole blood of the two pairs of twins and independently sequenced by Illumina and Complete ...the genome, and mapping characteristics, the data from the same platform ...
7
Whole genome sequencing of enriched chloroplast DNA using the Illumina GAII platform
... chloroplast DNA was determined by quantitative real-time PCR (qPCR) with gDNA, cpDNA and RCAcpDNA templates; the quantity of the plastid gene psbB was determined relative to nuclear encoded 18S rRNA by comparative ...
6
How is genome sequencing done?
... with whole genome DNA or targeted gene fragments, the initial step in the process employed by our 454 Sequencing System is a universal library preparation for any ...for sequencing any ...
8
Mycobacterial DNA Extraction for Whole Genome Sequencing from Early Positive Liquid (MGIT) Cultures
... human DNA in samples extracted with and without the MolYsis version of the QIAamp protocol was per- formed using human  -actin primers, a  -actin probe, and the reaction condition described in Herrera at ...
7
Analytical validation of whole exome and whole genome sequencing for clinical applications
... shown in Figures 1 and 2. The samples were chosen to include a trio (NA12878-NA12891-NA12892) with nu- merous reference callsets both public and internal, eth- nic diversity (NA18507) and a sample (NA10080) with a known ...
11
epiG: statistical inference and profiling of DNA methylation from whole genome bisulfite sequencing data
... 6 DNA accessibility near a CTCF site. a Consensus DNA accessibility near a representative CTCF site at position 31,109,691 on chromosome 20 in the LNCaP ...
16
Guidelines for whole genome bisulphite sequencing of intact and FFPET DNA on the Illumina HiSeq X Ten
... TruSeq DNA methylation kit from Illumina, TruMethyl WG from Cambridge Epigenetix and Accel-NGS Methyl- Seq from Swift Biosciences, with input amounts of, 50, 200 and 100 ngs DNA, ...overall ...
20
Emergence of a daptomycin non susceptible Enterococcus faecium strain that encodes mutations in DNA repair genes after high dose daptomycin therapy
... endocarditis. Whole-genome sequencing revealed mutations within the mutL and recJ genes of the DNSE strain, while in vitro analyses dem- onstrated that the DNSE strain exhibited higher rates of ...
6
Whole-genome sequencing in an autism multiplex family
... pilot sequencing analysis on patients from multiplex ...autism. DNA samples were avail- able for all subjects, except for one unaffected ...generated whole-genome sequencing data on the ...
15
On the Ethics of Clinical Whole Genome Sequencing of Children
... apply whole exome sequencing (WES) to diagnose a pediatric patient with a rare digestive ...coding DNA sequence of an ...include whole genome sequencing (WGS) and has since re- ...
5
Genome sequence of Coxiella burnetii strain Namibia
... of whole genome information of Coxiella burnetii is a cumbersome ...of DNA for whole genome sequencing of ...Furthermore, DNA isolation is not always successful and not ...
9
Evaluation of DNA Extraction Methods on Individual Helminth Egg and Larval Stages for Whole-Genome Sequencing
... A key challenge of working with environmental stages of helminth parasites is that they are often immature, for example, eggs or early stage larvae, and extremely small (for example, Haemonchus contortus eggs are ...
12