PMC:4157143 / 18237-19231 JSONTXT

{"project":"2_test","denotations":[{"id":"25192044-12175810-2055638","span":{"begin":276,"end":278},"obj":"12175810"},{"id":"25192044-22086963-2055639","span":{"begin":326,"end":328},"obj":"22086963"},{"id":"25192044-24092820-2055640","span":{"begin":684,"end":686},"obj":"24092820"},{"id":"25192044-16381927-2055641","span":{"begin":812,"end":814},"obj":"16381927"},{"id":"25192044-17135203-2055642","span":{"begin":850,"end":852},"obj":"17135203"},{"id":"25192044-22159132-2055643","span":{"begin":890,"end":892},"obj":"22159132"},{"id":"25192044-19850723-2055644","span":{"begin":904,"end":906},"obj":"19850723"},{"id":"25192044-20576703-2055645","span":{"begin":943,"end":945},"obj":"20576703"}],"text":"Conservation and Network Annotation\nWe examined the conservation of family eQTL genes between humans and chimpanzees (Pan Troglodytes) by using the dN/dS ratios; dN measures the rate of amino acid substitutions, and dS measures the background rate of neutral DNA subsitutions.39 The dN and dS values were obtained from BioMart40 (Ensembl v.70), and the dN/dS ratios were computed. dN/dS is negatively correlated with the conservation status of a gene, so higher dN/dS ratios indicate lower conservation of a gene. We also compared centrality of eQTL genes by using the protein-protein interaction (PPI) network as another indication of the biological importance of the affected genes.19 We computed connectivity of family and population eQTL genes in the PPI network. The PPI network was integrated from BioGRID,41 the Molecular Interaction database,42 the Human Protein Reference Database,43 and IntAct,44 all data obtained from the GeneMANIA45 data repository (downloaded on January 4, 2012)."}