Genome sequence, comparative analysis and haplotype structure of the domestic dog

By Kerstin Lindblad-Toh, Claire M. Wade, Tarjei S. Mikkelsen, Elinor K. Karlsson, David B. Jaffe, Michael Kamal, Michele E. Clamp, Jean L. Chang, E. Kulbokas, M. Zody and 36 more. Nature, 2005

2,642 citations recorded by the source corpus.

Subfields: Genetics, Plant Science

View Paper: https://www.semanticscholar.org/paper/b01f00857b9abec4f245c665c5042824f5430711

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Citations in the corpus

Widespread Genomic Signatures of Natural Selection in Hominid Evolution (2009, methodology): “We downloaded pairwise human (hg18) and dog (canFam2) [64] alignments, converted these to best-reciprocal alignments as described above, and discarded blocks of length,100 bp and blocks that were unassigned to a chromosome region.”
Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data (2012, methodology): “The ascertainment scheme used for SNP discovery in dogs was complicated [68].”
Genomewide Analysis of PRC1 and PRC2 Occupancy Identifies Two Classes of Bivalent Domains (2008, background): “Mammalian genomes contain ,200 large regions characterized by striking enrichment for highly conserved noncoding elements [30,31] and exceptionally low CpG divergence rates [32].”
The Evolution of Animal Domestication (2014, background): “The temporal pattern of variation revealed that though predomestic horses lacked variability, coat color variation increased significantly following domestication (Ludwig et al. 2009).”
Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology (2009, background): “Genome assemblies are being produced for a growing number of animal and plant species, including several species of domestic animals like the cow [7], chicken [8], dog [9], cat [10] and pig [11,12].”
Genome-Wide Association Studies in Dogs and Humans Identify ADAMTS20 as a Risk Variant for Cleft Lip and Palate (2015, methodology): “1;[22]) was retrieved from the University of California, Santa Cruz genome browser (UCSC, http://genome.”
Translation of new cancer treatments from pet dogs to humans (2008, background): “In addition, the inclusion of dogs from different breeds in clinical trials provides a cross-sectional value that is often higher than that obtained in studies of inbred laboratory animals, by providing a background genetic diversity similar to that seen in human populations (on the basis of single ”
Discovering microRNAs from deep sequencing data using miRDeep (2008, background): “Domestic dogs are emerging as an important model system for human diseas”
Development and Application of High-density SNP Arrays in Genomic Studies of Domestic Animals (2010, positive): “There were more than 2.5 million potential SNPs in the dog genome, with one SNP per 0.9 kb between breeds and one SNP per 1.5 kb within breeds (Lindblad-Toh et al., 2005).”
Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries (2011, background): “Cloning bias hindered efforts to sequence the AT-rich genomes of Dictyostelium [12] and Plasmodium [13] and excluded the GC-rich first exons of about 10% of protein-coding genes in the dog (K Lindblad-Toh, personal communication) from an otherwise high-quality reference genome assembly [14].”
The mammalian epigenome. (2007, background): “However, highly conserved elements in mammals are distributed across vast genomic regions much larger than the chromatin domains, and thus are likely to have additional functions (Lindblad-Toh et al., 2005; Woolfe et al., 2005).”