The DOI matches its Crossref record; 115 of the 115 references it cites were found in a registry or an index.
Genome sequence, comparative analysis and haplotype structure of the domestic dog
Open accessAbstract
Here we report a high-quality draft genome sequence of the domestic dog (Canis familiaris), together with a dense map of single nucleotide polymorphisms (SNPs) across breeds. The dog is of particular interest because it provides important evolutionary information and because existing breeds show great phenotypic diversity for morphological, physiological and behavioural traits. We use sequence comparison with the primate and rodent lineages to shed light on the structure and evolution of genomes and genes. Notably, the majority of the most highly conserved non-coding sequences in mammalian genomes are clustered near a small subset of genes with important roles in development. Analysis of SNPs reveals long-range haplotypes across the entire dog genome, and defines the nature of genetic diversity within and across breeds. The current SNP map now makes it possible for genome-wide association studies to identify genes responsible for diseases and traits, with important consequences for human and companion animal health.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
The source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“The isolation of strains and breeds in these species results in much longer block lengths than are found in humans.”
From Linkage disequilibrium--understanding the evolutionary past and mapping the medical future. (2008) · cites this paper as [24]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“Dogs were domesticated from grey wolves at least 15 000–50 000 years ago, through both natural and artificial selection [16,17].”
From Are dark-eyed dogs favoured by humans? Domestication as a potential driver of iris colour difference between dogs and wolves (2023) · cites this paper as [16]
Experimental — accuracy not yet measuredIn the citing paper
“The median value of K S is 1.02.”
From Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences (2007) · cites this paper as [10]
In the citing paper
“The most surprising discovery to emerge from comparative analyses of eutherian genomes is the finding that the majority of evolutionarily conserved sequence does not represent protein-coding genes, but rather are conserved non-coding elements (CNEs) 7,10 .”
From Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences (2007) · cites this paper as [10]
In the citing paper
“Strikingly, the proportion of eutherian-specific CNEs recognizable as transposable-element-derived (16%) is very similar to the proportion of the total aligned sequence between the human, mouse and dog genomes recognizable as ancestral transposable elements (,17% of ,812 Mb; the vast majority of which is inactive) 10 .”
From Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences (2007) · cites this paper as [10]
In the citing paper
“The Felis catus genome is predicted to contain 19,493 protein-coding genes and 1,855 noncoding RNAs, similar to dog (14).”
From Comparative analysis of the domestic cat genome reveals genetic signatures underlying feline biology and domestication (2014) · cites this paper as [14]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625
Self-citationInitial sequencing and analysis of the human genome
International Human Genome Sequencing Consortium, Whitehead Institute for Biomedical Research, C. F. G. R., Lander, E. S., Linton, L. M., Birren, B., Nusbaum, C., Zody, M. C., Baldwin, J., Devon, K., Dewar, K., et al. (2001) · Nature · doi:10.1038/35057062 · Cited by 24,216
Self-citationHaploview: analysis and visualization of LD and haplotype maps
Barrett, J. C., Fry, B., Maller, J., & Daly, M. J. (2004) · Bioinformatics · doi:10.1093/bioinformatics/bth457 · Cited by 14,563
Self-citationThe sequence of the human genome
Venter, J. C., Adams, M. D., Myers, E. W., Li, P. W., Mural, R. J., Sutton, G. G., Smith, H. O., Yandell, M., Evans, C. A., Holt, R. A., et al. (2001) · Science · doi:10.1126/science.1058040 · Cited by 13,909
Self-citationLewis, B. P., Burge, C. B., & Bartel, D. P. (2005) · Cell · doi:10.1016/j.cell.2004.12.035 · Cited by 11,855
Mootha, V. K., Lindgren, C. M., Eriksson, K.-F., Subramanian, A., Sihag, S., Lehar, J., Puigserver, P., Carlsson, E., Ridderstråle, M., Laurila, E., et al. (2003) · Nature Genetics · doi:10.1038/ng1180 · Cited by 10,197
Self-citationInitial sequencing and comparative analysis of the mouse genome
Mouse Genome Sequencing Consortium (2002) · Nature · doi:10.1038/nature01262 · Cited by 7,187
Error bounds for convolutional codes and an asymptotically optimum decoding algorithm
Viterbi, A. J. (1967) · IEEE Transactions on Information Theory · doi:10.1109/tit.1967.1054010 · Cited by 6,954
The International HapMap Project
†The International HapMap Consortium, Genotyping centres: Baylor College of Medicine and ParAllele BioScience, Gibbs, R. A., Belmont, J. W., Hardenbol, P., Willis, T. D., Yu, F., Chinese HapMap Consortium, Yang, H., Ch'ang, L.-Y., et al. (2003) · Nature · doi:10.1038/nature02168 · Cited by 6,057
Self-citationThe Structure of Haplotype Blocks in the Human Genome
Gabriel, S. B., Schaffner, S. F., Nguyen, H., Moore, J. M., Roy, J., Blumenstiel, B., Higgins, J., DeFelice, M., Lochner, A., Faggart, M., et al. (2002) · Science · doi:10.1126/science.1069424 · Cited by 5,863
Self-citationFinishing the euchromatic sequence of the human genome
International Human Genome Sequencing Consortium (2004) · Nature · doi:10.1038/nature03001 · Cited by 4,971
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
Siepel, A., Bejerano, G., Pedersen, J. S., Hinrichs, A. S., Hou, M., Rosenbloom, K., Clawson, H., Spieth, J., Hillier, L. W., Richards, S., et al. (2005) · Genome Research · doi:10.1101/gr.3715005 · Cited by 3,971 · cited 1×
“We note that the 204 regions include nearly all of the recently identified clusters of conserved elements between distantly related vertebrates such as chicken and pufferfish 55,59–62 .”
BackgroundA map of human genome sequence variation containing 1.42 million single nucleotide polymorphisms
The International SNP Map Working Group, Laboratories:, C. S. H., Sachidanandam, R., Weissman, D., Schmidt, S. C., Kakol, J. M., Stein, L. D., National Center for Biotechnology Information:, Marth, G., Sherry, S., et al. (2001) · Nature · doi:10.1038/35057149 · Cited by 2,977
Self-citationInternational Chicken Genome Sequencing Consortium (2004) · Nature · doi:10.1038/nature03154 · Cited by 2,750
Lin, L., Faraco, J., Li, R., Kadotani, H., Rogers, W., Lin, X., Qiu, X., de Jong, P. J., Nishino, S., & Mignot, E. (1999) · Cell · doi:10.1016/s0092-8674(00)81965-0 · Cited by 2,613
Initial sequence of the chimpanzee genome and comparison with the human genome
The Chimpanzee Sequencing and Analysis Consortium (2005) · Nature · doi:10.1038/nature04072 · Cited by 2,459
Metagenes and molecular pattern discovery using matrix factorization
Brunet, J.-P., Tamayo, P., Golub, T. R., & Mesirov, J. P. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0308531101 · Cited by 2,183
Genome sequence of the Brown Norway rat yields insights into mammalian evolution
Gibbs, R. A., Weinstock, G. M., Metzker, M. L., Muzny, D. M., Sodergren, E. J., Scherer, S. E., Scott, G., Steffen, D. L., Worley, K. C., Burch, P. E., et al. (2004) · Nature · doi:10.1038/nature02426 · Cited by 2,170
Self-citationXie, X., Lu, J., Kulbokas, E. J., Golub, T. R., Mootha, V., Lindblad-Toh, K., Lander, E. S., & Kellis, M. (2005) · Nature · doi:10.1038/nature03441 · Cited by 1,872
Self-citationUltraconserved Elements in the Human Genome
Bejerano, G., Pheasant, M., Makunin, I., Stephen, S., Kent, W. J., Mattick, J. S., & Haussler, D. (2004) · Science · doi:10.1126/science.1098119 · Cited by 1,732
Aligning Multiple Genomic Sequences With the Threaded Blockset Aligner
Blanchette, M., Kent, W. J., Riemer, C., Elnitski, L., Smit, A. F. A., Roskin, K. M., Baertsch, R., Rosenbloom, K., Clawson, H., Green, E. D., et al. (2004) · Genome Research · doi:10.1101/gr.1933104 · Cited by 1,452
Molecular phylogenetics and the origins of placental mammals
Murphy, W. J., Eizirik, E., Johnson, W. E., Zhang, Y., Ryder, O. A., & O’Brien, S. J. (2001) · Nature · doi:10.1038/35054550 · Cited by 1,380
The Ka/Ks ratio: diagnosing the form of sequence evolution
Hurst, L. D. (2002) · Trends in Genetics · doi:10.1016/s0168-9525(02)02722-1 · Cited by 1,364
Human–Mouse Alignments with BLASTZPreprint
Schwartz, S., Kent, W. J., Smit, A., Zhang, Z., Baertsch, R., Hardison, R. C., Haussler, D. H., & Miller, W. (2002) · Genome Research · doi:10.1101/gr.809403 · Cited by 1,246
Body size, metabolic rate, generation time, and the molecular clock.
Martin, A. P., & Palumbi, S. R. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.9.4087 · Cited by 1,239 · cited 1×
“The lineage-specific divergence rates (human , dog , mouse) are probably explained by differences in metabolic rates 50,51 or generation times 52,53 , but the relative contributions of these factors remain unclear 49 .”
BackgroundDNA methylation and the frequency of CpG in animal DNA
Bird, A. P. (1980) · Nucleic Acids Research · doi:10.1093/nar/8.7.1499 · Cited by 1,175
Multiple and Ancient Origins of the Domestic Dog
Vilà, C., Savolainen, P., Maldonado, J. E., Amorim, I. R., Rice, J. E., Honeycutt, R. L., Crandall, K. A., Lundeberg, J., & Wayne, R. K. (1997) · Science · doi:10.1126/science.276.5319.1687 · Cited by 1,091
Self-citationNumber of CpG islands and genes in human and mouse.
Antequera, F., & Bird, A. P. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.24.11995 · Cited by 1,011
Highly Conserved Non-Coding Sequences Are Associated with Vertebrate Development
Woolfe, A., Goodson, M., Goode, D. K., Snell, P., McEwen, G. K., Vavouri, T., Smith, S. F., North, P., Callaway, H., Kelly, K., et al. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0030007 · Cited by 970
SSAHA: A Fast Search Method for Large DNA Databases
Ning, Z., Cox, A. J., & Mullikin, J. C. (2001) · Genome Research · doi:10.1101/gr.194201 · Cited by 965
Genetic Evidence for an East Asian Origin of Domestic Dogs
Savolainen, P., Zhang, Y.-P., Luo, J., Lundeberg, J., & Leitner, T. (2002) · Science · doi:10.1126/science.1073906 · Cited by 960
PatternHunter: faster and more sensitive homology search
Ma, B., Tromp, J., & Li, M. (2002) · Bioinformatics · doi:10.1093/bioinformatics/18.3.440 · Cited by 837
Genetic Structure of the Purebred Domestic Dog
Parker, H. G., Kim, L. V., Sutter, N. B., Carlson, S., Lorentzen, T. D., Malek, T. B., Johnson, G. S., DeFrance, H. B., Ostrander, E. A., & Kruglyak, L. (2004) · Science · doi:10.1126/science.1097406 · Cited by 753
Self-citationPostcopulatory sexual selection
Birkhead, T. R., & Pizzari, T. (2002) · Nature Reviews Genetics · doi:10.1038/nrg774 · Cited by 698
Comparative analyses of multi-species sequences from targeted genomic regions
Thomas, J. W., Touchman, J., Blakesley, R. W., Bouffard, G. G., Beckstrom‐Sternberg, S. M., Margulies, E. H., Blanchette, M., Siepel, A. C., Thomas, P. J., McDowell, J. C., et al. (2003) · Nature · doi:10.1038/nature01858 · Cited by 630
Molecular origins of rapid and continuous morphological evolution
Fondon, J. W., & Garner, H. R. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0408118101 · Cited by 614
Scanning Human Gene Deserts for Long-Range Enhancers
Nobrega, M. A., Ovcharenko, I., Afzal, V., & Rubin, E. M. (2003) · Science · doi:10.1126/science.1088328 · Cited by 608
Rapid evolution of male reproductive genes in the descent of man
Wyckoff, G. J., Wang, W., & Wu, C. (2000) · Nature · doi:10.1038/35002070 · Cited by 560
The Dog Genome: Survey Sequencing and Comparative Analysis
Kirkness, E. F., Bafna, V., Halpern, A. L., Levy, S., Remington, K., Rusch, D. B., Delcher, A. L., Pop, M., Wang, W., Fraser, C. M., et al. (2003) · Science · doi:10.1126/science.1086432 · Cited by 556
Self-citationThe rate of DNA evolution: Effects of body size and temperature on the molecular clock
Gillooly, J. F., Allen, A. P., West, G. B., & Brown, J. H. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407735101 · Cited by 522
Phylogenetic Shadowing of Primate Sequences to Find Functional Regions of the Human Genome
Boffelli, D., McAuliffe, J., Ovcharenko, D., Lewis, K. D., Ovcharenko, I., Pachter, L., & Rubin, E. M. (2003) · Science · doi:10.1126/science.1081331 · Cited by 516
Rate of Fixation of Nucleotide Substitutions in Evolution
Laird, C. D., McConaughy, B. L., & McCarthy, B. J. (1969) · Nature · doi:10.1038/224149a0 · Cited by 499
Toward genome-wide SNP genotyping
Syvänen, A. (2005) · Nature Genetics · doi:10.1038/ng1558 · Cited by 464
An evaluation of the molecular clock hypothesis using mammalian DNA sequences
Li, W., Tanimura, M., & Sharp, P. M. (1987) · Journal of Molecular Evolution · doi:10.1007/bf02603118 · Cited by 450
Ancient DNA Evidence for Old World Origin of New World Dogs
Leonard, J. A., Wayne, R. K., Wheeler, J. C., Valadez, R., Guillén, S. E., & Vilà, C. (2002) · Science · doi:10.1126/science.1076980 · Cited by 445
Self-citationAn Alu Transposition Model for the Origin and Expansion of Human Segmental Duplications
Bailey, J. A., Liu, G., & Eichler, E. E. (2003) · The American Journal of Human Genetics · doi:10.1086/378594 · Cited by 445
Comparison of models for nucleotide substitution used in maximum-likelihood phylogenetic estimation.
Yang, Z., Goldman, N., & Friday, A. (1994) · Molecular Biology and Evolution · doi:10.1093/oxfordjournals.molbev.a040112 · Cited by 433
Accelerated Evolution of Nervous System Genes in the Origin of Homo sapiens
Dorus, S., Vallender, E. J., Evans, P. D., Anderson, J. R., Gilbert, S. L., Mahowald, M. A., Wyckoff, G. J., Malcom, C. M., & Lahn, B. T. (2004) · Cell · doi:10.1016/j.cell.2004.11.040 · Cited by 429
Uchikawa, M., Ishida, Y., Takemoto, T., Kamachi, Y., & Kondoh, H. (2003) · Developmental Cell · doi:10.1016/s1534-5807(03)00088-1 · Cited by 397
Hwang, D. G., & Green, P. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0404142101 · Cited by 390
Using haplotype blocks to map human complex trait loci
Cardon, L. R., & Abecasis, G. R. (2003) · Trends in Genetics · doi:10.1016/s0168-9525(03)00022-2 · Cited by 367
Analysis of expressed sequence tags indicates 35,000 human genes
Ewing, B., & Green, P. (2000) · Nature Genetics · doi:10.1038/76115 · Cited by 359
Near-neutrality in evolution of genes and gene regulation
Ohta, T. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.252626899 · Cited by 333 · cited 1×
“Population genetic theory predicts 75 that the strength of purifying selection should increase with effective population size ( N e ).”
BackgroundThe Biology and Conservation of Wild Canids
(2004) · doi:10.1093/acprof:oso/9780198515562.001.0001 · Cited by 327
Extensive and breed-specific linkage disequilibrium in Canis familiarisPreprint
Sutter, N. B., Eberle, M. A., Parker, H. G., Pullar, B. J., Kirkness, E. F., Kruglyak, L., & Ostrander, E. A. (2004) · Genome Research · doi:10.1101/gr.3147604 · Cited by 313
Self-citationWhole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2Preprint
Jaffe, D. B., Butler, J., Gnerre, S., Mauceli, E., Lindblad-Toh, K., Mesirov, J. P., Zody, M. C., & Eric, S. L. (2003) · Genome Research · doi:10.1101/gr.828403 · Cited by 309
Self-citationSequence Divergence, Functional Constraint, and Selection in Protein Evolution
Fay, J. C., & Wu, C. (2003) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev.genom.4.020303.162528 · Cited by 298
Correlation of sperm motility with mitochondrial enzymatic activities
Ruiz‐Pesini, E., Díez, C., Lapeña, A. C., Martos, A. P., Montoya, J., Alvarez, E., Arenas, J., & López-Pérez, M. J. (1998) · Clinical Chemistry · doi:10.1093/clinchem/44.8.1616 · Cited by 295
Breen, M., Jouquand, S., Renier, C. M., Mellersh, C. S., Hitte, C., Holmes, N. G., Cheron, A., Suter, N. M., Vignaux, F., Bristow, A. E., et al. (2001) · Genome Research · doi:10.1101/gr.189401 · Cited by 279
Self-citationMolecular Systematics of the Canidae
Wayne, R. K., Geffen, E., Girman, D. J., Koepfli, K., Lau, L. M., & Marshall, C. R. (1997) · Systematic Biology · doi:10.1093/sysbio/46.4.622 · Cited by 264
Self-citationDog star rising: the canine genetic system
Sutter, N. B., & Ostrander, E. A. (2004) · Nature Reviews Genetics · doi:10.1038/nrg1492 · Cited by 259
Self-citationEvolution and functional classification of vertebrate gene desertsPreprint
Ovcharenko, I., Loots, G. G., Nóbrega, M. A., Hardison, R. C., Miller, W., & Stubbs, L. J. (2004) · Genome Research · doi:10.1101/gr.3015505 · Cited by 236
Hotspots of mammalian chromosomal evolution
Bailey, J. A., Baertsch, R., Kent, W. J., Haussler, D. H., & Eichler, E. E. (2004) · Genome biology · doi:10.1186/gb-2004-5-4-r23 · Cited by 235
Dorus, S., Evans, P. D., Wyckoff, G. J., Choi, S. S., & Lahn, B. T. (2004) · Nature Genetics · doi:10.1038/ng1471 · Cited by 227
Comparison of the genomes of human and mouse lays the foundation of genome zoology
Emes, R. D. (2003) · Human Molecular Genetics · doi:10.1093/hmg/ddg078 · Cited by 220
Ostrander, E. A., Galibert, F., & Patterson, D. F. (2000) · Trends in Genetics · doi:10.1016/s0168-9525(99)01958-7 · Cited by 218
Self-citationde la Calle‐Mustienes, E., Feijóo, C. G., Manzanares, M., Tena, J. J., Rodríguez-Seguel, E., Letizia, A., Allende-Connelly, M., & Skarmeta, J. L. G. (2005) · Genome Research · doi:10.1101/gr.4004805 · Cited by 199
A Comparison of the Celera and Ensembl Predicted Gene Sets Reveals Little Overlap in Novel Genes
Hogenesch, J. B., Ching, K. A., Batalov, S., Su, A. I., Walker, J. R., Zhou, Y., Kay, S. A., Schultz, P. G., & Cooke, M. P. (2001) · Cell · doi:10.1016/s0092-8674(01)00467-6 · Cited by 188
Accelerated evolution of the electron transport chain in anthropoid primates
Grossman, L. I., Wildman, D. E., Schmidt, T. R., & Goodman, M. (2004) · Trends in Genetics · doi:10.1016/j.tig.2004.09.002 · Cited by 186
Sidjanin, D. J. (2002) · Human Molecular Genetics · doi:10.1093/hmg/11.16.1823 · Cited by 184
Chase, K., Carrier, D. R., Adler, F. R., Jarvik, T., Ostrander, E. A., Lorentzen, T. D., & Lark, K. G. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.152333099 · Cited by 168
Self-citationUnleashing the Canine GenomePreprint
Ostrander, E. A., & Kruglyak, L. (2000) · Genome Research · doi:10.1101/gr.155900 · Cited by 165
Self-citationMiller, W., Makova, K. D., Nekrutenko, A., & Hardison, R. C. (2004) · Annual Review of Genomics and Human Genetics · doi:10.1146/annurev.genom.5.061903.180057 · Cited by 165
Molecular evolution meets the genomics revolution
Wolfe, K. H., & Li, W. (2003) · Nature Genetics · doi:10.1038/ng1088 · Cited by 158
Pelé, M., Tiret, L., Kessler, J.-L., Blot, S., & Panthier, J. (2005) · Human Molecular Genetics · doi:10.1093/hmg/ddi151 · Cited by 153
Genes of domestic mammals augmented by backcrossing with wild ancestors
Vilà, C., Seddon, J. M., & Ellegren, H. (2005) · Trends in Genetics · doi:10.1016/j.tig.2005.02.004 · Cited by 153
A molecular phylogeny of the Canidae based on six nuclear loci
Bardeleben, C., Moore, R. L., & Wayne, R. K. (2005) · Molecular Phylogenetics and Evolution · doi:10.1016/j.ympev.2005.07.019 · Cited by 152
Self-citationFrom wild wolf to domestic dog: gene expression changes in the brain
Saetre, P., Lindberg, J. H., Leonard, J. A., Olsson, K., Pettersson, U., Ellegren, H., Bergström, T. F., Vilà, C., & JAZIN, E. E. (2004) · Molecular Brain Research · doi:10.1016/j.molbrainres.2004.05.003 · Cited by 150
Estimation of Errors in “Raw” DNA Sequences: A Validation StudyPreprint
Richterich, P. (1998) · Genome Research · doi:10.1101/gr.8.3.251 · Cited by 140
Companion Animal Medicine in the Age of Medical Genetics
Patterson, D. F. (2000) · Journal of Veterinary Internal Medicine · doi:10.1111/j.1939-1676.2000.tb01492.x · Cited by 140
Short interspersed elements (SINEs) are a major source of canine genomic diversityPreprint
Wang, W., & Kirkness, E. F. (2005) · Genome Research · doi:10.1101/gr.3765505 · Cited by 125
Self-citationSelective sweep mapping of genes with large phenotypic effectsPreprint
Pollinger, J. P., Bustamante, C. D., Fledel-Alon, A., Schmutz, S. M., GRAY, M. M., & Wayne, R. K. (2005) · Genome Research · doi:10.1101/gr.4374505 · Cited by 121
Self-citationA Model of the Statistical Power of Comparative Genome Sequence Analysis
Eddy, S. R. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0030010 · Cited by 119
Quantitative Estimates of Sequence Divergence for Comparative Analyses of Mammalian GenomesPreprint
Cooper, G. M., Brudno, M., Program, N. C. S., Green, E. D., Batzoglou, S., & Sidow, A. (2003) · Genome Research · doi:10.1101/gr.1064503 · Cited by 119
Margulies, E. H., Vinson, J. P., Program¶, N. C. S., Miller, W., Jaffe, D. B., Lindblad‐Toh, K., Chang, J. L., Green, E. D., Lander, E. S., Mullikin, J. C., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0409882102 · Cited by 119
Self-citationLimb morphology of domestic and wild canids: The influence of development on morphologic change
Wayne, R. K. (1986) · Journal of Morphology · doi:10.1002/jmor.1051870304 · Cited by 118
Self-citationAn integrated 4249 marker FISH/RH map of the canine genome
Breen, M., Hitte, C., Lorentzen, T. D., Thomas, R. J., Cadieu, É., Sabacan, L. P., Scott, A., Evanno, G., Parker, H. G., Kirkness, E. F., et al. (2004) · BMC Genomics · doi:10.1186/1471-2164-5-65 · Cited by 117
Self-citationBreen, M., BULLERDIEK, J., & Langford, C. F. (1999) · Chromosome Research · doi:10.1023/a:1009224232134 · Cited by 114
Self-citationLi, R., Mignot, E. J.-M., Faraco, J. H., Kadotani, H., Cantanese, J., Zhao, B., Lin, X., Hinton, L. M., Ostrander, E. A., Patterson, D. F., et al. (1999) · Genomics · doi:10.1006/geno.1999.5772 · Cited by 106
Self-citationBruette, W. A. (1921) · doi:10.5962/bhl.title.42425 · Cited by 101
IDID: Inherited Diseases in Dogs: Web-based information for canine inherited disease genetics
Sargan, D. R. (2004) · Mammalian Genome · doi:10.1007/s00335-004-3047-z · Cited by 96
Frazer, K. A., Wade, C. M., Hinds, D. A., Patil, N., Cox, D., & Daly, M. J. (2004) · Genome Research · doi:10.1101/gr.2627804 · Cited by 82
Self-citationKimura-Yoshida, C., Kitajima, K., Oda‐Ishii, I., Tian, E., Suzuki, M., Yamamoto, M. P., Suzuki, T., Kobayashi, M., Aizawa, S., & Matsuo, I. (2003) · Development · doi:10.1242/dev.00877 · Cited by 81
Dermitzakis, E. T., Kirkness, E. F., Schwarz, S., Birney, E., Reymond, A., & Antonarakis, S. E. (2004) · Genome Research · doi:10.1101/gr.1934904 · Cited by 78
Self-citationFacilitating genome navigation: survey sequencing and dense radiation-hybrid gene mapping
Hitte, C., Madeoy, J. J., Kirkness, E. F., Priat, C., Lorentzen, T. D., Senger, F., Thomas, D., Derrien, T., Ramirez, C. J., Scott, C., et al. (2005) · Nature Reviews Genetics · doi:10.1038/nrg1658 · Cited by 74
Self-citationBelle, E. M. S., Duret, L., Galtier, N., & Eyre‐Walker, A. (2004) · Journal of Molecular Evolution · doi:10.1007/s00239-004-2587-x · Cited by 72
The evolution of the type I interferon gene family in mammals
Hughes, A. (1995) · Journal of Molecular Evolution · doi:10.1007/bf00175811 · Cited by 69
Maternal inheritance, sexual conflict and the maladapted male
Zeh, J. A., & Zeh, D. W. (2005) · Trends in Genetics · doi:10.1016/j.tig.2005.03.006 · Cited by 69
Evidence for turnover of functional noncoding DNA in mammalian genome evolution
Smith, N. G. C., Durling, M. B., & Ellegren, H. (2004) · Genomics · doi:10.1016/j.ygeno.2004.07.012 · Cited by 59
Physical and Linkage Mapping of Human Chromosome 17 Loci to Dog Chromosomes 9 and 5
Werner, P., Raducha, M. G., Prociuk, U., Henthorn, P. S., & Patterson, D. F. (1997) · Genomics · doi:10.1006/geno.1997.4723 · Cited by 58
Hotspots of mutation and breakage in dog and human chromosomesPreprint
Webber, C., & Ponting, C. P. (2005) · Genome Research · doi:10.1101/gr.3896805 · Cited by 52
Self-citationMamedov, I. Z. (2005) · Nucleic Acids Research · doi:10.1093/nar/gni018 · Cited by 45
Fogle, B., & Lucas, S. (1995) · Cited by 45
Directionality theory and the evolution of body size
Demetrius, L. (2000) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2000.1295 · Cited by 44
Isochore Evolution in Mammals: A Human-Like Ancestral Structure
Galtier, N., & Mouchiroud, D. (1998) · Genetics · doi:10.1093/genetics/150.4.1577 · Cited by 41
Walter, K., Abnizova, I., Elgar, G., & Gilks, W. R. (2005) · Trends in Genetics · doi:10.1016/j.tig.2005.06.003 · Cited by 33
Todhunter, R. J., Casella, G., Bliss, S. P., Lust, G., Williams, A. J., Hamilton, S., Dykes, N. L., Yeager, A. E., Gilbert, R. O., Burton‐Wurster, N., et al. (2003) · American Journal of Veterinary Research · doi:10.2460/ajvr.2003.64.418 · Cited by 31
Prospects for whole genome linkage disequilibrium mapping in domestic dog breeds
Hyun, C., Filippich, L. J., Lea, R. A., Shepherd, G. A., Hughes, I. P., & Griffiths, L. R. (2003) · Mammalian Genome · doi:10.1007/s00335-003-3006-0 · Cited by 28
Le chien, un modèle pour la génétique des mammifères
Galibert, F., André, C., & Hitte, C. (2004) · médecine/sciences · doi:10.1051/medsci/2004208-9761 · Cited by 26
Self-citationSingle nucleotide polymorphisms (SNPs) that map to gaps in the human SNP map
Tsui, C. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg664 · Cited by 25
Chromosomal rearrangements are associated with higher rates of molecular evolution in mammals
Marquès‐Bonet, T., & Navarro, A. (2005) · Gene · doi:10.1016/j.gene.2005.05.007 · Cited by 23
The extent and distribution of linkage disequilibrium in a multi-hierarchic outbred canine pedigree
Lou, X., Todhunter, R. J., Lin, M. J., Lu, Q. L., Liu, T., Wang, Z., Bliss, S. P., Casella, G., Acland, G. M., Lust, G., et al. (2003) · Mammalian Genome · doi:10.1007/s00335-003-2272-1 · Cited by 21
Andelfinger, G., Hitte, C., Etter, L., Guyon, R., Bourque, G., Tesler, G., Pevzner, P. A., Kirkness, E. F., Galibert, F., & Benson, D. W. (2004) · Genomics · doi:10.1016/j.ygeno.2003.12.009 · Cited by 18
Self-citationBardeleben, C., Moore, R. L., & Wayne, R. K. (2004) · Molecular Biology and Evolution · doi:10.1093/molbev/msi022 · Cited by 18
Self-citationEstimating the Human Gene Count
Daly, M. J. (2002) · Cell · doi:10.1016/s0092-8674(02)00742-0 · Cited by 18
Self-citation
Research works printed but not linked: 3
- Wilcox, B. & Walkowicz, C. The Atlas of Dog Breeds of the World (T.H.F. Publications, Neptune City, New York, 1995)
- Hudson, R. R. in Oxford Surveys in Evolutionary Biology Vol. 7 (eds Futuyma, D. & Antonovics, J.) 1–44 (Oxford Univ. Press, Oxford, 1990)
- Kajiwara, N. & Japanese Kennel Club in Akita (eds Kariyabu, T. & Kaluzniacki, S.) 1–103 (Japan Kennel Club, Tokyo, 1998)
Cited by
Sorted by citations
A bivalent chromatin structure marks key developmental genes in embryonic stem cells
Bernstein, B. E., Mikkelsen, T. S., Xie, X., Kamal, M., Huebert, D. J., Cuff, J., Fry, B., Meissner, A., Wernig, M., Plath, K., et al. (2006) · Cell · doi:10.1016/j.cell.2006.02.041 · Cited by 5,361
Self-citationThe ENCODE Project Consortium (2007) · Nature · doi:10.1038/nature05874 · Cited by 5,223
Inference of population splits and mixtures from genome-wide allele frequency data
Pickrell, J. K., & Pritchard, J. K. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002967 · Cited by 2,731
Mattick, J. S., & Makunin, I. V. (2006) · Human Molecular Genetics · doi:10.1093/hmg/ddl046 · Cited by 2,546
Bernstein, B. E., Meissner, A., & Lander, E. S. (2007) · Cell · doi:10.1016/j.cell.2007.01.033 · Cited by 2,086
Self-citation
Metadata
- Authors
- members, B. S. P., Lindblad-Toh, K., Wade, C. M., Mikkelsen, T. S., Karlsson, E. K., Jaffe, D. B., Kamal, M., Clamp, M., Chang, J. L., Kulbokas, E. J., Zody, M. C., Mauceli, E., Xie, X., Breen, M., Wayne, R. K., Ostrander, E. A., Ponting, C. P., Galibert, F., Smith, D. R., deJong, P. J., Kirkness, E., Alvarez, P., Biagi, T., Brockman, W., Butler, J., Chin, C.-W., Cook, A., Cuff, J., Daly, M. J., DeCaprio, D., Gnerre, S., Grabherr, M., Kellis, M., Kleber, M., Bardeleben, C., Goodstadt, L., Heger, A., Hitte, C., Kim, L., Koepfli, K.-P., Parker, H. G., Pollinger, J. P., Searle, S. M. J., Sutter, N. B., Thomas, R., Webber, C., & Lander, E. S.
- Affiliations
- Broad Institute (US)
- North Carolina State University (US)
- National Institutes of Health (US)
- Centre National de la Recherche Scientifique (FR)
- University of California, Los Angeles (US)
- University of Oxford (GB)
- Corresponding author
- Lander, Eric S.
- ORCID
- Wade, Claire M
- Mikkelsen, Tarjei S.
- Karlsson, Elinor K.
- Jaffe, David B.
- Zody, Michael C.
- Xie, Xiaohui
- Breen, Matthew
- Wayne, Robert K.
- Ostrander, Elaine A.
- Ponting, Chris P.
- Galibert, Francis
- Alvarez, Pablo
- Cuff, James
- Daly, Mark J.
- DeCaprio, David
- Grabherr, Manfred
- Kellis, Manolis
- Heger, Andreas
- Hitte, Christophe
- Kim, Lisa
- Koepfli, Klaus-Peter
- Parker, Heidi G.
- Pollinger, John P.
- Sutter, Nathan B.
- Thomas, Rachael
- Webber, Caleb
- Lander, Eric S.
- Venue
- Nature
- Published
- 2005-12
- Volume
- 438
- Issue
- 7069
- Pages
- 803-819
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W2114611642
- Semantic Scholar
- b01f00857b9abec4f245c665c5042824f5430711
- Cited by
- 2,568
- References
- 115
- Citations by year
- 2026: 40 · 2025: 66 · 2024: 94 · 2023: 106 · 2022: 95 · 2021: 122 · 2020: 141 · 2019: 122 · 2018: 114 · 2017: 88 · 2016: 116 · 2015: 138 · 2014: 140 · 2013: 131 · 2012: 144
- FWCI
- 84.07
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.springer.com/tdm (tdm)
- Locations
- Nature (publishedVersion)
- PubMed (publishedVersion)
- ORCA Online Research @Cardiff (Cardiff University) (submittedVersion)
- Funders
- National Institutes of Health
- National Human Genome Research Institute
- Topics
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Human-Animal Interaction Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- dogs, single nucleotide polymorphisms, breed genetic diversity, haplotype structure, genome evolution, comparative genomics, conserved non-coding elements, genome-wide association study, dog breeds
- MeSH terms
- Animals, Dog Diseases, Dogs, Female, Haplotypes, Humans, Hybridization, Genetic, Male, Mutagenesis, Genome, Conserved Sequence, Evolution, Molecular, Short Interspersed Nucleotide Elements, Polymorphism, Single Nucleotide, Genomics, Synteny, Mice, Rats
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 ›
Are you an author, or do you see a problem with this page? Request a review
