E-AFMX-11 - Transcription profiling of humans and chimpanzees in brain, heart, liver, kidney, and testis

Released on 6 October 2011, last updated on 12 October 2011
Homo sapiens, Pan troglodytes
Samples (55)
Array (1)
Protocols (4)
The determination of the chimpanzee genome sequence provides a means to study both structural and functional aspects of the evolution of the human genome. Here we compare humans and chimpanzees with respect to differences in expression levels and protein-coding sequences for genes active in brain, heart, liver, kidney, and testis. We find that the patterns of differences in gene expression and gene sequences are markedly similar. In particular, there is a gradation of selective constraints among the tissues so that the brain shows the least differences between the species whereas liver shows the most. Furthermore, expression levels as well as amino acid sequences of genes active in more tissues have diverged less between the species than have genes active in fewer tissues. In general, these patterns are consistent with a model of neutral evolution with negative selection. However, for X-chromosomal genes expressed in testis, patterns suggestive of positive selection on sequence changes as well as expression changes are seen. Furthermore, although genes expressed in the brain have changed less than have genes expressed in other tissues, in agreement with previous work we find that genes active in brain have accumulated more changes on the human than on the chimpanzee lineage.
Experiment types
transcription profiling by array, organism part comparison, species
Parallel Patterns of Evolution in the Genomes and Transcriptomes of Humans and Chimpanzees. Philipp Khaitovich, Ines Hellmann, Wolfgang Enard, Katja Nowick, Marcus Leinweber, Henriette Franz, Gunter Weiss, Michael Lachmann, and Svante Pääbo.
Comparison of protein and mRNA expression evolution in humans and chimpanzees. Fu N, Drinnenberg I, Kelso J, Wu JR, Pääbo S, Zeng R, Khaitovich P. :e216 (2007), PMID:17299596
Investigation descriptionE-AFMX-11.idf.txt
Sample and data relationshipE-AFMX-11.sdrf.txt
Raw data (4)E-AFMX-11.raw.1.zip, E-AFMX-11.raw.2.zip, E-AFMX-11.raw.3.zip, E-AFMX-11.raw.4.zip
Array designA-AFFY-44.adf.txt
R ExpressionSetE-AFMX-11.eSet.r