The downloaded information was provided in the form of two MySQL tables formatted as XML, a table of parts and a table of Sequence Features.
For each gene, a table of sequence polymorphisms, identified by multiple sequence alignment of orthologs using Muscle (Edgar, 2004), is displayed.
Additional file 5: Table of sequence polymorphisms and expression differences of 23 chromatin modifiers among the BY, RM and YJM strains.
Table of sequence clusters (clustered at 95%% sequence identity) comprising AfunF1.2 gene set transcripts (13,897 sequences), the "Crawford" assembled transcriptome (14,850 sequences) and the "Gregory" assembled transcriptome (18,103 sequences).
Conservation is notably higher among MSMB3 orthologues 81-822% amino acid identity) compared with MSMB1 54-600%) and MSMB2 53-566%) (see additional file 4: avian_MSMBs.pdf for table of sequence identities and similarities).
The full table of sequencing results and differential expression is provided in Additional file 2. The highest transcript abundance differences between the lines were found to be the transgenes and selection marker mCherry (Fig. 10a).
We thank the reviewers for their suggestion and we have (1) made a table of sequencing depth of each sample as Supplementary file 1A; (2) made tables in Supplementary file 1B E that provide the number of mapped reads, RPKMs, and nucleotide coverage for the four classes of genes showing in Figure 1B, 1C, 1D, and 1E.
Tables of sequence identities for E. histolytica Rho GTPases and p21-activated kinases.
Thus, complete tables of sequence identifiers and organ-specific unigenes accession numbers printed on arrays are available [ 50].
