Sentence examples for and assembly using the from inspiring English sources

Twenty-two published (GenBank JU090712-JU090733), three unpublished sweet cherry contigs from the same assembly and the complete genome sequence of the phage phiX174 (GenBank J02482.1) were added to the Velvet contigs, which were then assembled via decremental clustering and assembly using the programs PAVE 3.0 and CAP3 in five rounds with decreasing stringency.

In this work, we describe gene synthesis and assembly using the polymerase chain reaction as a method for single-step synthesis of DNA sequences.

Sequencing chromatograms were analyzed for sequence quality and assembly using the Lasergene 9 Core suite software (DNASTAR, Madison, WI).

Sequence chromatograms were processed for base calling and assembly using the Phred, Phrap and Consed suite of software programs (Ewing et al. 1998; Gordon et al. 1998).

After clustering and assembly using the TGICL clustering utilities [ 29], 66,312 sequence reads were incorporated into 11,155 assemblies and 24,352 singletons for a total of 35,507 unique sequences.

Clustering and assembly using the GS De Novo Assembler software v2.0.01 (454 Life Sciences, Roche) led to the construction of 14,085 and 9,120 contigs from H. serrata and P. carinatus, respectively, with average lengths of 608 ± 460 and 532 ± 380 bp.

The specificity of RT-PCR primers was checked by BLAST search against the Bos taurus reference transcriptome and genome assembly using the Primer-BLAST tool (http://www.ncbi.nlm.nih.gov/tools/primer-blast/index.cgi LINK_LOC = BlastHome).nih.gov/tools/primer-blast/index.cgi LINK_LO

To test the performance of SOAPdenovo2, we assembled the Assemblathon1 benchmark dataset [ 11] and evaluated the assembly using the Assemblathon1's official evaluation pipeline [ 1].

The acquired sequence reads were subjected to quality filtering and de novo assembly using the hierarchical genome-assembly process (HGAP) version 3.0 module available from the Pacific Biosciences's SMRT portal (Chin et al. 2013).

We subjected sequences to BLAST analysis (BLAST, http://blast.ncbi.nlm.nih.gov), aligned using the BioEdit program, v7.1.9 (http://www.mbio.ncsu.edu/bioedit/bioedit.html) and performed sequence assembly using the DNASTAR v6.0 (DNA Star, Madison, WI, USA).

Pre-processing and de novo assembly using the GS De Novo Assembler Software clustered 51056 reads (77.2% of the total high-quality reads) into 8413 contigs [GenBank TSA database accession nos. JO460003-JO467642] and left 15119 singletons, yielding a total of 23532 unigenes.