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During sequencing, each base in the template is sequenced twice, and the resulting data are decoded according to this scheme. SOLiD (Sequencing by Oligonucleotide Ligation and Detection) is a next-generation DNA sequencing technology developed by Life Technologies and has been commercially available since 2006.
The Staden Package was developed by Rodger Staden's group at the Medical Research Council (MRC) Laboratory of Molecular Biology, Cambridge, England, since 1977. [2] [3] [4] The package was available free to academic users, with 2,500 licenses issued in 2003 and an estimated 10,000 users, when funding for further development ended. [5]
There are numerous programs for de novo sequence assembly and many have been compared in the Assemblathon. The Assemblathon is a periodic, collaborative effort to test and improve the numerous assemblers available. Thus far, two assemblathons have been completed (2011 and 2013) and a third is in progress (as of April 2017).
Accurately performs gapped alignment of sequence data obtained from next-generation sequencing machines (specifically of Solexa-Illumina) back to a genome of any size. Includes adaptor trimming, SNP calling and Bisulfite sequence analysis. Yes, also supports Illumina *_int.txt and *_prb.txt files with all 4 quality scores for each base
The fourth is a great example of how interactive graphical tools enable a worker involved in sequence analysis to conveniently execute a variety if different computational tools to explore an alignment's phylogenetic implications; or, to predict the structure and functional properties of a specific sequence, e.g., comparative modelling.
The Sequence View is used to visualize, analyze and modify nucleic acid or protein sequences. Depending on the sequence type and the options selected, the following views can be present in the Sequence View window: 3D structure view; Circular view; Chromatogram view; Graphs View: GC-content, AG-content, and other; Dot plot view
BFAST is a universal DNA sequence aligner tool developed at UCLA by Nils Homer. [1]The BFAST Web Server can be used to align short reads to reference sequences in both nucleotide space as well as ABI SOLiD color space.
The first automated DNA sequencer, invented by Lloyd M. Smith, was introduced by Applied Biosystems in 1987. [1] It used the Sanger sequencing method, a technology which formed the basis of the "first generation" of DNA sequencers [ 2 ] [ 3 ] and enabled the completion of the human genome project in 2001. [ 4 ]