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Evolutionary and biomedical insights from the rhesus macaque genome.
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The rhesus macaque ( Macaca mulatta ) is an abundant primate species that diverged from the ancestors of Homo sapiens about 25 million years ago. Because they are genetically and physiologically similar to humans, rhesus monkeys are the most widely used nonhuman primate in basic and applied biomedical research. We determined the genome sequence of an Indian-origin Macaca mulatta female and compared the data with chimpanzees and humans to reveal the structure of ancestral primate genomes and to identify evidence for positive selection and lineage-specific expansions and contractions of gene families. A comparison of sequences from individual animals was used to investigate their underlying genetic diversity. The complete description of the macaque genome blueprint enhances the utility of this animal model for biomedical research and improves our understanding of the basic biology of the species.
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“The amino acid sequence of the extracellular domains of rhesus and cynomolgus CD28 are identical with the one of human CD28 (Fig. S3 and see genebank entries 111144662 and 112817616 for Macaca mulatta and 110611295, 111144664, and 110611297 for Macaca fascicularis as well as ref. [42]).”
From Signaling Signatures and Functional Properties of Anti-Human CD28 Superagonistic Antibodies (2008) · cites this paper as [42]
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Self-citation
Metadata
- Authors
- Gibbs, R. A., Rogers, J., Katze, M. G., Bumgarner, R., Weinstock, G. M., Mardis, E. R., Remington, K. A., Strausberg, R. L., Venter, J. C., Wilson, R. K., Batzer, M. A., Bustamante, C. D., Eichler, E. E., Hahn, M. W., Hardison, R. C., Makova, K. D., Miller, W., Milosavljevic, A., Palermo, R. E., Siepel, A., Sikela, J. M., Attaway, T., Bell, S., Bernard, K. E., Buhay, C. J., Chandrabose, M. N., Dao, M., Davis, C., Delehaunty, K. D., Ding, Y., Dinh, H. H., Dugan-Rocha, S., Fulton, L. A., Gabisi, R. A., Garner, T. T., Godfrey, J., Hawes, A. C., Hernandez, J., Hines, S., Holder, M., Hume, J., Jhangiani, S. N., Joshi, V., Khan, Z. M., Kirkness, E. F., Cree, A., Fowler, R. G., Lee, S., Lewis, L. R., Li, Z., Liu, Y.-S., Moore, S. M., Muzny, D., Nazareth, L. V., Ngo, D. N., Okwuonu, G. O., Pai, G., Parker, D., Paul, H. A., Pfannkoch, C., Pohl, C. S., Rogers, Y.-H., Ruiz, S. J., Sabo, A., Santibanez, J., Schneider, B. W., Smith, S. M., Sodergren, E., Svatek, A. F., Utterback, T. R., Vattathil, S., Warren, W., White, C. S., Chinwalla, A. T., Feng, Y., Halpern, A. L., Hillier, L. W., Huang, X., Minx, P., Nelson, J. O., Pepin, K. H., Qin, X., Sutton, G. G., Venter, E., Walenz, B. P., Wallis, J. W., Worley, K. C., Yang, S.-P., Jones, S. M., Marra, M. A., Rocchi, M., Schein, J. E., Baertsch, R., Clarke, L., Csürös, M., Glasscock, J., Harris, R. A., Havlak, P., Jackson, A. R., Jiang, H., Liu, Y., Messina, D. N., Shen, Y., Song, H. X.-Z., Wylie, T., Zhang, L., Birney, E., Han, K., Konkel, M. K., Lee, J., Smit, A. F. A., Ullmer, B., Wang, H., Xing, J., Burhans, R., Cheng, Z., Karro, J. E., Ma, J., Raney, B., She, X., Cox, M. J., Demuth, J. P., Dumas, L. J., Han, S.-G., Hopkins, J., Karimpour-Fard, A., Kim, Y. H., Pollack, J. R., Vinar, T., Addo-Quaye, C., Degenhardt, J., Denby, A., Hubisz, M. J., Indap, A., Kosiol, C., Lahn, B. T., Lawson, H. A., Marklein, A., Nielsen, R., Vallender, E. J., Clark, A. G., Ferguson, B., Hernandez, R. D., Hirani, K., Kehrer-Sawatzki, H., Kolb, J., Patil, S., Pu, L.-L., Ren, Y., Smith, D. G., Wheeler, D. A., Schenck, I., Ball, E. V., Chen, R., Cooper, D. N., Giardine, B., Hsu, F., Kent, W. J., Lesk, A., Nelson, D. L., O'Brien, W. E., Prüfer, K., Stenson, P. D., Wallace, J. C., Ke, H., Liu, X.-M., Wang, P., Xiang, A. P., Yang, F., Barber, G. P., Haussler, D., Karolchik, D., Kern, A. D., Kuhn, R. M., Smith, K. E., & Zwieg, A. S.
- Affiliations
- Texas Biomedical Research Institute (US)
- Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.
- ORCID
- Gibbs, Richard A.
- Rogers, Jeffrey
- Bumgarner, Roger
- Weinstock, George M.
- Mardis, Elaine R.
- Venter, J. Craig
- Wilson, Richard K.
- Batzer, Mark A.
- Bustamante, Carlos D.
- Eichler, Evan E.
- Hahn, Matthew W.
- Hardison, Ross C.
- Makova, Kateryna D.
- Milosavljevic, Aleksandar
- Palermo, Robert E.
- Siepel, Adam
- Sikela, James M.
- Ding, Yan
- Dinh, Huyen H.
- Hernandez, Judith
- Jhangiani, Shalini N.
- Khan, Ziad Mohid
- Muzny, Donna
- Pohl, Craig S.
- Sabo, Aniko
- Sodergren, Erica
- Vattathil, Selina
- Warren, Wesley
- Chinwalla, Asif T.
- Feng, Yucheng
- Halpern, Aaron L.
- Huang, Xiaoqiu
- Nelson, Joanne O.
- Pepin, Kymberlie H.
- Qin, Xiang
- Walenz, Brian P.
- Worley, Kim C.
- Marra, Marco A.
- Rocchi, Mariano
- Baertsch, Robert
- Clarke, Laura
- Glasscock, Jarret
- Harris, R. Alan
- Liu, Yue
- Messina, David N.
- Shen, Yufeng
- Wylie, Todd
- Zhang, Lan
- Birney, Ewan
- Han, Kyudong
- Konkel, Miriam K.
- Lee, Jungnam
- Smit, Arian F. A.
- Ullmer, Brygg
- Wang, Hui
- Xing, Jinchuan
- Ma, Jian
- Raney, Brian
- Demuth, Jeffery P.
- Dumas, Laura J.
- Pollack, Jonathan R.
- Hubisz, Melissa J.
- Indap, Amit
- Kosiol, Carolin
- Lahn, Bruce T.
- Lawson, Heather A.
- Marklein, Alison
- Nielsen, Rasmus
- Vallender, Eric J.
- Clark, Andrew G.
- Ferguson, Betsy
- Hernandez, Ryan D.
- Ren, Yanru
- Smith, David Glenn
- Wheeler, David A.
- Chen, Rui
- Cooper, David N.
- Giardine, Belinda
- Lesk, Arthur
- Nelson, David L.
- Wallace, James C.
- Wang, Peng
- Xiang, Andy Peng
- Yang, Fan
- Haussler, David
- Kuhn, Robert M.
- Venue
- Science
- Published
- 2007-04-13
- Volume
- 316
- Issue
- 5822
- Pages
- 222-234
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W2125548284
- Cited by
- 1,403
- References
- 69
- Citations by year
- 2026: 28 · 2025: 51 · 2024: 34 · 2023: 63 · 2022: 69 · 2021: 69 · 2020: 53 · 2019: 50 · 2018: 59 · 2017: 46 · 2016: 51 · 2015: 73 · 2014: 74 · 2013: 78 · 2012: 98
- FWCI
- 52.32
- Type
- journal article
- Language
- en
- Open access
- Locations
- Science (publishedVersion)
- PubMed (publishedVersion)
- Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory) (acceptedVersion)
- Civil War Book Review (submittedVersion)
- Max Planck Institute for Plasma Physics (submittedVersion)
- Research at the University of Copenhagen (University of Copenhagen) (submittedVersion)
- MPG.PuRe (Max Planck Society) (submittedVersion)
- CINECA IRIS Institutional Research Information System (University of Bari Aldo Moro) (submittedVersion)
- Funders
- Wellcome Trust (062023)
- National Human Genome Research Institute (U54HG003068, U54HG003079, R01HG002939)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
- Life Sciences › Agricultural and Biological Sciences › Ecology, Evolution, Behavior and Systematics › Primate Behavior and Ecology
- Keywords
- rhesus monkeys, genome sequence, comparative genomics, primate evolution, positive selection, gene family expansion and contraction, genetic diversity, nonhuman primate model
- MeSH terms
- Animals, Pan troglodytes, Female, Multigene Family, Humans, Macaca mulatta, Male, Mutation, Species Specificity, Genetic Variation, Gene Rearrangement, Genome, Sequence Analysis, DNA, Evolution, Molecular, Gene Duplication, Genetic Diseases, Inborn, Biomedical Research
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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