Paired-end DNA sequencing
High-throughput long paired-end sequencing of a Fosmid library by PacBio
... short end reads and are incompatible with emerging long-read high-throughput technologies [64, ...recovering paired ends and/or use enzyme sites [67] to screen the positive paired ...ends. ...
15
Simple paired heavy- and light-chain antibody repertoire sequencing using endoplasmic reticulum microsomes
... sticky-end DNA ligase (New England Biolabs) and transformed into one-shot chemically competent ...plasmid DNA sequences that matched closest to the consensus sequences were co- transfected into human ...
12
Non-contiguous finished genome sequence of Phocaeicola abscessus type strain 7401987T
... 3-kb paired-end sequencing strate- gies were ...of DNA with a GS Rapid library Prep kit (Roche). For the paired-end se- quencing, 5 µg of DNA was mechanically frag- mented ...
8
Transcriptome analysis of the freshwater pearl mussel, Hyriopsis cumingii (Lea) Uusing Illumina paired-end sequencing to identify genes and markers
... Because of the high variability, abundance, neutrality and co-dominance of microsatellite DNA (Liu and Cordes, 2004), much research on genomic simple sequence repeats (SSRs) in H. cumingii have been done so far ...
18
AdapterRemoval: easy cleaning of next generation sequencing reads
... ancient DNA – although the problem is not isolated to these fields of ...or paired-end data, finding adapters in the 5’ or 3’ end of reads, searching for multiple different adapters), and in what ...
7
SHI7 Is a Self-Learning Pipeline for Multipurpose Short-Read DNA Quality Control
... These results are interesting in that it was not obvious that there was specific adaptor contamination (albeit at low level), nor was it obvious that a majority of these 100-bp paired-end shotgun reads ...
8
Mobile element insertions are frequent in oesophageal adenocarcinomas and can mislead paired end sequencing analysis
... 100bp paired-end sequencing was performed, on a single library per sample, under contract by Illumina on the Hi-Seq-2000 (Illumina, San Diego, CA) to a depth of at least ...one end, presumably ...
14
Evidences showing wide presence of small genomic aberrations in chronic lymphocytic leukemia
... next-generation DNA sequen- cing technologies to collect paired-end sequences from restriction DNA fragments across a genome ...for paired-end tag collection, and eight including ...
12
Pharmacogene regulatory elements: from discovery to applications
... deep sequencing; cDNA, complementary DNA; ChIA-PET, chromatin interaction analysis by paired-end tag sequencing; ChIP-Seq, chromatin immunoprecipitation sequencing; CYP, ...
13
Konnector v2.0: pseudo-long reads from paired-end sequencing data
... Once the start and goal k-mers have been selected, Konnector performs the search for connecting paths. In order to maximize the accuracy of the sequence connect- ing the reads, it is important for the algorithm to ...
10
Gen bank new Holotype for Coriolopsis byrsina prk 1 with blast rectangle tree view
... The colony morphologically identified C.byrsina was further identified by PCR procedures based on amplification of 18S rDNA gene. PCR was standardised with forward and reverse PCR primers and performed in a volume of 25 ...
6
Detection of an amplification bias associated to Leuconostocaceae family with a universal primer routinely used for monitoring microbial community structures within food products
... Sample multiplexing was performed by adding tailor- made 6-bp unique index tags to the ends of the forward and reverse adapters (5 ′ -AAT GAT ACG GCG ACC ACC GAG ATC TAC ACT -3 ′ and 5 ′ -CAA GCA GAA GAC GGC ATA CGA GAT ...
5
Incomplete homogenization of 18 S ribosomal DNA coding regions in Arabidopsis thaliana
... BAC-end sequencing of the Arabidopsis genome pre- cludes direct analysis from trace sequences, thus to sam- ple sequence variation of 18 S rDNA, genomic DNA was ...
7
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
Advances with RNA interference in Alzheimer’s disease research
... and sequencing of the cDNA encoding a core protein of the paired helical filament of Alzheimer disease: identification as the microtubule-associated protein ...
9
Original Article Transcriptome profiles of moderate dysplasia in oral mucosa associated with malignant conversion
... Among the genes differentially expressed in MEDs versus paired normal tissues, the most significantly regulated genes were found associated with multiple malignant bioprocess- es. Proinflammatory cytokines promote ...
11
The mismatched nucleotides in the 5'-terminal hairpin of minute virus of mice are required for efficient viral DNA replication.
... 39 end of MVM DNA is a stretch of perfectly base-paired duplex DNA approximately 50 nucleotides long ...-terminal DNA hairpin of ...its DNA recognition ...viral DNA. Al- ...
8
A novel circulating hsa_circ_0081001 act as a potential biomarker for diagnosis and prognosis of osteosarcoma
... RNA sequencing in the three paired chemo-resistant and chemo-sensitive osteosarcoma cell lines (MG63/DXR vs MG63, KHOS/DXR vs KHOS, U2OS/DXR vs U2OS), and found that hsa_circ_0081001 was significantly ...
8
GBS-SNP-CROP: a reference-optional pipeline for SNP discovery and plant germplasm characterization using variable length, paired-end genotyping-by-sequencing data
... as paired-ends without secondary or supplementary alignments to the reference are ...both sequencing and PCR errors, including strand bias errors, since the exact same errors must arise independently, at ...
16
Defining “mutation” and “polymorphism” in the era of personal genomics
... tumor-normal paired samples coming from 15 different tumor types [45] using Next Gene ...germline DNA of the same ...new sequencing technologies have dramatically reduced the cost of ...
7