Additional data file 2.

List of the significantly up- and down-regulated genes in TIA-1 and TIAR-depleted HeLa cells analyzed by using Integromics™ software [39]. The studied gene parameters are as follow. Affymetrix Probe Set ID: probe-set identifier of the Affymetrix database [42]. Average Fold Change: mean value of fold change, expressed as base 2 logarithm, for each gene between the compared situations. RP Value Up: probability for a specific gene to be up-regulated. Expected UP: expected value for a certain RP Value Up (it represents the average number of times that an equal or better RP value appears in randomized experiments). FDR Up: expected percentage of false positives for up-regulated genes. RP Value Down: probability for a specific gene to be down-regulated. Expected Down: expected value for a certain RP Value Down. FDR Down: expected percentage of false positives for down-regulated genes. Venn Up: shows in which of the three compared situations (control versus TIA-1 (T1), control versus TIAR (T2) or control versus TIA-1 and TIAR (T3)) the gene is up-regulated. Venn Down: shows in which of the three compared situations as above the gene is down-regulated. UniGene ID: identification number of each gene in the UniGene database [43]. Gene Title: gene name. Gene Symbol: acronym of each gene. Chromosomal Location: gene location on the chromosome. Entrez Gene: probe-set identifier in the Entrez Gene database [44]. SwissProt: protein accession number in SwissProt database [45]. OMIM: accession number in Online Mendelian Inheritance in Man, a database for human genes and genetic disorders [46]. GO Biological Process, GO Cellular Component, GO Molecular Function: accession number and description of the assigned GO in biological process, cellular component and molecular function categories [47]. Pathway: accession number and gene pathway assigned in the biologically represented pathways of the GenMAPP database [48]. InterPro: accession number in the InterPro database and description of protein families and domains [49].

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Reyes et al. Genome Biology 2009 10:R87   doi:10.1186/gb-2009-10-8-r87