DNA sequencing, sequence editing, alignments and identification
Sequence analysis and editing for bisulphite genomic sequencing projects
... or sequence electropherograms (without adaptive peak height adjustment), and then align them to a reference ...reference sequence. Interactive editing is facilitated by the fact that each cell in a ...
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Genome-wide identification of RNA editing in seven porcine tissues by matched DNA and RNA high-throughput sequencing
... RNA sequencing data and whole-genome sequencing data of the brain, fat, heart, liver, lung, muscle and ovary from three 180-day-old Large White ...RNA editing sites and imple- mented a detailed ...
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Feasibility Study into the Use of DNA Sequencing for the Identification of Probiotic Bacteria
... using sequencing based ...for sequence alignment will influence the possible ...species identification. The lack of standardised criteria for 16s rDNA sequence information on public databases ...
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Identification of sequence variants associated with severe microtia-astresia by targeted sequencing
... Genomic DNA was extracted from peripheral blood and randomly fragmented by sonication to an average size of ~ 250 ...Illumina sequencing adaptors was then ligated to both ends of the resulting fragments ...
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Modified Genetic Algorithm for DNA Sequence Assembly by Shotgun and Hybridization Sequencing Techniques
... multiple sequence alignment, performance guarantee algorithms have been developed using the sum of pair’s optimality criterion (Gusfield, 1991; Pevzney, ...produce alignments that are of interest to ...
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IDENTIFICATION OF WILD SPECIES OF SUNFLOWER BY A SPECIFIC PLASTID DNA SEQUENCE
... trnH-psbA sequence was selected with the aim of developing a “DNA barcode” system (Kress et ...Automated DNA sequencer. Intraspecific and interspecific sequence variation was evaluated to ...
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An alternative novel tool for DNA editing without target sequence limitation: the structure guided nuclease
... that the dimerization of SGN is also mediated through Fn1. To determine the location of the cleavage site created by SGN, we used pyrosequencing [30, 31] to sequence the cleaved strands (Fig. 6a). The targets (S-1 ...
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Identification of Dermatophyte Species by 28S Ribosomal DNA Sequencing with a Commercial Kit
... rapid identification of dermatophytes with high specificity and ...Rapid identification by PCR is particularly helpful in cases of tinea capitis, where the knowledge of the exact species of dermatophyte in ...
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IVisTMSA: INTERACTIVE VISUAL TOOLS FOR MULTIPLE SEQUENCE ALIGNMENTS
... view location of motifs or ‘EMBOSS’ ‘seqret’ can load files in all supported format. This has enabled to integrate the EMBOSS software package. XML files are used to load and configure the modules. Base-By-Base (Hillary ...
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Identification of Mycobacterium spp by Using a Commercial 16S Ribosomal DNA Sequencing Kit and Additional Sequencing Libraries
... that sequencing provides more accuracy in identifying My- cobacterium species than does ...GenBank. Sequencing technology is continually giving us new information regarding mycobacterial ...through ...
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Identification of DNA N 6 -methyladenine sites by integration of sequence features
... of sequencing technologies. DNA N 6 ‑methyladenine (6mA), which is a prevalent epigenetic modification, plays impor‑ tant roles in a series of biological ...far, identification of DNA 6mA ...
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Identification of DNA sequence variants in the estrogen receptor pathway in breast cancer
... The role of non-coding genomic variants in cancer and other diseases has been largely understudied due to the technological challenges and lack of understanding about the non-coding genome. In this dissertation, we ...
175
Noisy: Identification of problematic columns in multiple sequence alignments
... Our approach removes randomized sites from a pre-com- puted alignment. In contrast to manual manipulation of alignments, reducing data sets using noisy is transparent and easy to reproduce. Assuming that ...
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Noisy: Identification of problematic columns in multiple sequence alignments
... Consequently, one may try to improve the accu- racy of tree reconstruction by eliminating all puta- tive homoplastic or otherwise corrupted sites, e.g., all third-codon positions of protein-coding genes. However, since ...
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The sequence of sequencers: The history of sequencing DNA
... used DNA polymerase to synthesize from a primer, incorporating radiolabelled nucleotides, before performing two second polymerisa- tion reactions: a ‘plus’ reaction, in which only a single type of nucleotide is ...
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The sequence of sequencers: The history of sequencing DNA
... used DNA polymerase to synthesize from a primer, incorporating radiolabelled nucleotides, before performing two second polymerisa- tion reactions: a ‘plus’ reaction, in which only a single type of nucleotide is ...
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Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE
... either sequence or structure ...visualize sequence and secondary struc- ture ...RNA sequence and secondary structure alignments to a single 2D structure plot of the associated consensus struc- ...
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MUTATIONS AND SEQUENCE ALIGNMENTS
... pairwise sequence alignments contained in T (! [8] , [1010]), T (! [8] , [0110]) and T (! [8] , [1100]) that encode multiple sequence alignments between the sequences of Anne, Bob and ...
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Distinguishing regional from within-codon rate heterogeneity in DNA sequence alignments
... Abstract. We present an improved phylogenetic factorial hidden Markov model (FHMM) for detecting two types of mosaic structures in DNA sequence alignments, related to (1) recombination and (2) rate ...
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Improved Bayesian methods for detecting recombination and rate heterogeneity in DNA sequence alignments
... same DNA sequence alignments as for the other models, and found that it succeeded in avoiding the failure in the Felsenstein ...to DNA sequence alignments of four sequences only, ...
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