In the absence of splice-version specific sequence data of 3'UTRs in GBMs we accounted for all alignments of miRs and un-translated regions of a given mRNA.
Most studies use the NCBI BLAST search for identification of locus origin and this might be sometimes misleading, as locus identification is commonly referred from distantly related taxa if no species specific sequence data is available.
The recent availability of classical Bordetella genomes gives us insight into the evolutionary changes involved in their divergence, including extensive genome decay, rearrangements and, for the first time, specific sequence data revealing evidence of limited gene acquisition [ 2, 5].
Allele-specific sequencing data showed that this new mutation occurred in the allele that harbored the original activating mutation of Kit [86].
Each gene-specific transcript is then selected based on two independent criteria: (i) its status must be annotated as 'KNOWN' because we opted not to include 'novel' transcripts in our database as these are not yet validated by species-specific sequencing data (Bert Overduin from Ensembl Project, Personal communication) and (ii) the highest junction score.
It is a domain-specific tool of IMG compatible with sequencing data from microbial communities.
There are three inputs to CQ-calculate: reference sequences, male-specific sequence data, and female-specific sequence data.
Forward (FP) and reverse (RP) primers and TaqMan probes were designed from human-specific sequence data (Entrez-NIH and Ensembl, Sanger Institute) using computer software (Primer Express, Applied Biosystems).
Although the Rat Genome Database (RGD) does not store nucleotide or protein sequences, access to gene- and protein-specific sequence data is provided on each RGD gene report page by links to external databases such as Entrez Nucleotide and UniProtKB.
Overall the average length of these transcript assemblies was comparable to the overall average transcript assembly length; 420 bases compared to 531 bases for the singleton sequences, which were highly enriched in the Solanaceae-specific sequence data set.
The approach of integrating allele-specific sequence data from both telomeric and centromeric emulsion systems to build up a structural haplotype at DEFA1A3 was then investigated in NA12760 and NA12878, two 5-copy individuals of unknown haplotype composition.
