Sentence examples for mapping and transcript from inspiring English sources

We used the TopHat 2.0.9 and Cufflinks 2.1.1 [ 18] for mapping and transcript assembly.

This provides a significant advantage over laborious pregenome mapping and transcript identification strategies.

A paired-end mRNA sequencing approach was used to allow high-confidence read mapping and transcript assembly.

Large gap read mapping and transcript discovery were performed in CLC Genomics Workbench 7.0.4 (CLC Bio Aarhus, Denmark).

Recent studies indicate biologically relevant transcripts are represented at much greater depth [ 46, 47] and need to be accounted for in mapping and transcript assembly.

Reads were quality-trimmed using the default settings of ConDeTri [ 39] prior to read mapping and transcript quantification with the Cufflinks pipeline (Bowtie 1.0.0, TopHat 2.0.9, Cufflinks 2.1.0) and the peach v1.0 reference genome [ 25, 40].

In this study, 54 directional RNA-seq libraries from Salmonella serovar Typhimurium (S. Typhimurium) 14028s were examined for potential relationships between read mapping patterns and transcript structure.

Expression values containing the number of reads per base pair were extracted from the mapping files, and transcript regions were identified using a cutoff of 100 reads.

For normalization of read counts, RPKM values were calculated on the three replicates of each sample as: number of mapped reads per gene divided by total mapped reads and transcript size, followed by multiplication by 1 million.

For gene ontology mapping, NWS unigenes were mapped to gene and transcript database of D. melanogaster release 5.22 (available from FlyBase).

While a majority of probesets are perfectly mapped to the genome and annotated to one gene and a few transcripts, a substantial number of probes and probesets present some difficulties in the mapping and annotation to transcript.