With a 15×-deep coverage of transcribed genomic regions, our data were able to (i) confirm for the first time 990 predictions without previous evidence of transcription; (ii) correct gene predictions; (iii) discover 989 and 1196 RNA-seq contigs that map to intergenic and intronic genomic regions, respectively, where no gene had been predicted before.
As the depth and coverage of transcribed regions in the cow genome increase, both the in-species annotations and cross-species validations of bidirectional promoters will benefit.
These different microarray platforms were chosen to achieve the highest possible coverage of known transcribed sequences.
An interesting observation regarding K562 is that when the number of factors exceeds 30, the increase in coverage of highly transcribed genes by adding a new factor is only marginal.
In comparison with full-length RNA sequencing, DeepSAGE has the advantage of comprehensive coverage of all (transcribed) genes at great depth, at the cost of not detecting different splice variants.
The latest release for the Affymetrix GeneChip Expression Analysis Platform, GeneChip Human Genome U133 Plus 2.0 Array [ 2], provides comprehensive coverage of the transcribed human genome on a single array.
The Human Genome U133 Plus 2.0 chips consist of 54,765 probe sets and provide comprehensive coverage of the transcribed human genome on a single array, allowing the analysis of more than 47,000 transcripts and variants, including 38,500 well-characterized human genes plus approximately 6,500 new genes [ 20].
The highest level of wDi proteomic coverage of the transcriptome was observed in the D. immitis FBW (over 20%% coverage), whereas only 6 and 5%% of transcribed genes were verified in the FU and FH tissues, respectively (Additional file 16: Figure S6A-C).
However, this absence of reads is within sampling error based on the RNA-seq coverage (225×) given transcribed allelic fraction of vIII at 1.6%% as estimated by NS.
Before they died, Mishler took on the task of transcribing recordings of her father's stories.
The conditions chosen and the pooling of those times after blood meal ingestion allows better coverage of the most abundant molecules transcribed in the midgut as well as a comparison of the molecules present prior to blood feeding, while the blood bolus is present, during digestion of the blood meal, and after the blood byproducts have been excreted.
