ArticleBMC genomics2014
Design and development of exome capture sequencing for the domestic pig (Sus scrofa).
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 28 citations in OpenAlex.
- Article
- Development of a whole-exome sequencing kit to facilitate porcine biomedical research.Genome biology · 2025Article
- Whole exome sequencing as a screening tool in dogs: A pilot study.Computational and structural biotechnology journal · 2025Article
- A domestic cat whole exome sequencing resource for trait discovery.Scientific reports · 2021Article
- An improved pig reference genome sequence to enable pig genetics and genomics research.GigaScience · 2020Article
- Integrating genomic resources to present full gene and putative promoter capture probe sets for bread wheat.GigaScience · 2019Article
- An exonic splicing enhancer mutation inDisease models & mechanisms · 2019Article
- Efficient and accurate detection of splice junctions from RNA-seq with Portcullis.GigaScience · 2018Article
- Livestock 2.0 - genome editing for fitter, healthier, and more productive farmed animals.Genome biology · 2018Review
- Whole exome sequencing in the rat.BMC genomics · 2018Article
- An exome sequencing based approach for genome-wide association studies in the dog.Scientific reports · 2017Article
- A dual targeted β-defensin and exome sequencing approach to identify, validate and functionally characterise genes associated with bull fertility.Scientific reports · 2017Article
- The incredible complexity of RNA splicing.Genome biology · 2016Article
- Design and application of a target capture sequencing of exons and conserved non-coding sequences for the rat.BMC genomics · 2016Article
- Sequence capture by hybridization to explore modern and ancient genomic diversity in model and nonmodel organisms.Nucleic acids research · 2016Review
- An heuristic filtering tool to identify phenotype-associated genetic variants applied to human intellectual disability and canine coat colors.BMC bioinformatics · 2015Article
- Identification and annotation of conserved promoters and macrophage-expressed genes in the pig genome.BMC genomics · 2015Article
- Exome Sequencing: Current and Future Perspectives.G3 (Bethesda, Md.) · 2015Article
- Identification of Low-Confidence Regions in the Pig Reference Genome (Sscrofa10.2).Frontiers in genetics · 2015Article
- Article
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Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
Abstract
backgroundThe domestic pig (Sus scrofa) is both an important livestock species and a model for biomedical research. Exome sequencing has accelerated identification of protein-coding variants underlying phenotypic traits in human and mouse. We aimed to develop and validate a similar resource for the pig.
resultsWe developed probe sets to capture pig exonic sequences based upon the current Ensembl pig gene annotation supplemented with mapped expressed sequence tags (ESTs) and demonstrated proof-of-principle capture and sequencing of the pig exome in 96 pigs, encompassing 24 capture experiments. For most of the samples at least 10x sequence coverage was achieved for more than 90% of the target bases. Bioinformatic analysis of the data revealed over 236,000 high confidence predicted SNPs and over 28,000 predicted indels.
conclusionsWe have achieved coverage statistics similar to those seen with commercially available human and mouse exome kits. Exome capture in pigs provides a tool to identify coding region variation associated with production traits, including loss of function mutations which may explain embryonic and neonatal losses, and to improve genomic assemblies in the vicinity of protein coding genes in the pig.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.