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Table 1 gives the statistical ratio of the data in which the annotations of the table are as follows: Cover channel selection ratio: denotes the ratio of the 'non-zero' subset to the 'residual noise' set of a cover image.
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All the annotations of the tables are followings, also in the additional table.
According to the annotation of that table, GenBank pig mRNAs were aligned against the pig genome (SGSC Sscrofa9.2/susScr2, Nov. 2009) using the Blat program [ 36].
Annotations of the common outliers (Table 2) indicated genes of potential physiological and ecological relevance, e.g. NHX1 and GABA-T that regulate salt and drought stress tolerance.
Four categories of expressed genes derived from the manual annotation of the contigs (Table 1).
In this study we have functionally categorized the associating domains following the functional annotations of Pfam (Table 1).
Next, we queried 10 different annotations of the B4a1a1a profile CHN.ASN.000451 (Table 2) in EMPOP 2 and verified that the different annotations always resulted in the same output.
The rhesus proteins derived from our annotation of the MacaM assembly are much more similar to their human orthologs than those derived from the NCBI annotations of rheMac2 (Table 5, Additional file 4).
GASS provides the annotated transcript sequences in FASTA format, and the annotations information with the table format of UCSC Genome Bioinformatics [ 19].
In order to computer overlaps with existing annotation we used the functionality of the Table Browser integrated in the UCSC genome browser and the "Operate on Genomic Intervals -tools of the Galaxy Browser [ 100] as well as BEDTools [ 98].
The primers that were designed with Primer software (version 5.0) based on the assembled transcriptome were used for amplification, and the annotations of the products are listed in Table 1.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com