Additional file 1. Genes differentially expressed in E. histolytica HM-1:IMSS, E. histolytica Rahman, and E. histolytica 200:NIH strains. (A) Genes differentially expressed in E. histolytica HM1:IMSS compared to E. histolytica Rahman and 200:NIH. The TIGR gene number, annotation, and fold-change are shown. Normalized expression data for E. histolytica HM-1:IMSS and Rahman strains grown in TYI-S-33 media were obtained from previously published literature [14] and subjected to local pooled error testing along with Benjamini-Hochberg multiple test correction. Genes that have higher expression in E. histolytica HM-1:IMSS than in 200:NIH or Rahman are listed under "up". Genes that have lower expression in E. histolytica HM-1:IMSS than in 200:NIH or Rahman are listed under "down". (B) Genes differentially expressed in E. histolytica Rahman compared to E. histolytica 200:NIH and HM-1:IMSS. The TIGR gene number, annotation, and fold-change are shown. Genes that have higher expression in E. histolytica Rahman than in HM-1:IMSS or 200:NIH are listed under "up". Genes that have lower expression in E. histolytica Rahman than in HM-1:IMSS or 200:NIH are listed under "down". (C) Genes differentially expressed in E. histolytica 200:NIH compared to E. histolytica Rahman and HM-1:IMSS. The TIGR gene number, annotation, and fold-change are shown. Genes that have higher expression in E. histolytica 200:NIH than in HM-1:IMSS or Rahman are listed under "up". Genes that have lower expression in E. histolytica 200:NIH than in HM-1:IMSS or Rahman are listed under "down".
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Additional file 2. Expression profiles of histone and chromatin modifying genes in E. histolytica strains HM-1:IMSS, 200:NIH, and Rahman. The mean trophozoite expression value for E. histolytica HM-1:IMSS, 200:NIH, and Rahman strains under standard culture conditions, GenBank ID number, and gene annotations are shown. Additional loci represented by crosshybridizing _s_at probe sets are as follows – 49.m00192_s_at: 334.m00048, 361.m00053 and 472.m00060; 100.m00145_s_at: 48.m00184; 4.m00618_s_at: 280.m00075; 9.m00405_s_at: 117.m00168 and 67.m00101; 39.m00254_s_at: 35.m00257; 444.m00042_s_at: 25.m00257. Genes that are statistically different in one strain compared to the other two are in bold.
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Additional file 3. Data for all arrays based on MIAME format. (A) Normalized array data for all genes. The Probe ID, TIGR gene number, GenBank accession, Annotation, fold-change, and FDR are shown. The array data for E. histolytica 200:NIH grown in TYI-S-33 media and E. histolytica 200:NIH exposed to low glucose (LG), Trichostatin A (TSA), and short chain fatty acids (SCFA) are listed. Normalized expression data for E. histolytica HM-1:IMSS and Rahman strains grown in TYI-S-33 media were obtained from previously published literature [14]. (B) Representation table for all _s_at probes.
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Additional file 4. Genes differentially regulated in E. histolytica 200:NIH by exposure to TSA media. (A) Genes with increased expression in TSA media. (B) Genes with decreased expression in TSA media. The Probe ID, TIGR gene number, GenBank accession, Annotation, fold-change, and FDR are shown. All array data are available at the GEO database website at NCBI (Accession number GSE8047).
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