ArticleGenes2019
Functionally Annotating Regulatory Elements in the Equine Genome Using Histone Mark ChIP-Seq.
Article in Genes, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
What it found
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
28 citing papers in PubMed, 44 citations in OpenAlex.
- Review: Genomic insights into the adaptive traits and stress resistance in modern horses.Stress biology · 2026Review
- A genome-wide investigation of insidious uveitis in Appaloosa horses.BMC genomics · 2025Article
- Genome-wide identification of the H3K27ac signals reveals key thermogenic cis-regulatory elements of brown adipose tissues in Oryctolagus cuniculus.BMC genomics · 2025Article
- A multi-tissue and -breed catalogue of chromatin conformations and their implications in gene regulation in pigs.BMC genomics · 2025Article
- Genetic influence of a STAU2 frameshift mutation and RELN regulatory elements on performance in Icelandic horses.Scientific reports · 2025Article
- A comprehensive allele specific expression resource for the equine transcriptome.BMC genomics · 2025Article
- Annotation of cis-regulatory-associated histone modifications in the genomes of two Thoroughbred stallions.Frontiers in genetics · 2025Article
- An endothelial regulatory module links blood pressure regulation with elite athletic performance.PLoS genetics · 2024Article
- A Comprehensive Allele Specific Expression Resource for the Equine Transcriptome.Research square · 2024Article
- The localization of centromere protein A is conserved among tissues.Communications biology · 2023Article
- AgAnimalGenomes: browsers for viewing and manually annotating farm animal genomes.Mammalian genome : official journal of the International Mammalian Genome Society · 2023Article
- AdaLiftOver: high-resolution identification of orthologous regulatory elements with Adaptive liftOver.Bioinformatics (Oxford, England) · 2023Article
- Functional annotation of the animal genomes: An integrated annotation resource for the horse.PLoS genetics · 2023Review
- Guidelines on the performance evaluation of motif recognition methods in bioinformatics.Frontiers in genetics · 2023Article
- ChIP-seq profiling of H3K4me3 and H3K27me3 in an invasive insect,Frontiers in genetics · 2023Article
- Investigation of high gamma-glutamyltransferase syndrome in California Thoroughbred racehorses.Journal of veterinary internal medicine · 2022Article
- Prediction of histone post-translational modification patterns based on nascent transcription data.Nature genetics · 2022Article
- Decoding the Equine Genome: Lessons from ENCODE.Genes · 2021Review
- Pig genome functional annotation enhances the biological interpretation of complex traits and human disease.Nature communications · 2021Article
- Multi-omics approach identifies germline regulatory variants associated with hematopoietic malignancies in retriever dog breeds.PLoS genetics · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors at 4 institutions in 2 countries.
Funding
Abstract
One of the primary aims of the Functional Annotation of ANimal Genomes (FAANG) initiative is to characterize tissue-specific regulation within animal genomes. To this end, we used chromatin immunoprecipitation followed by sequencing (ChIP-Seq) to map four histone modifications (H3K4me1, H3K4me3, H3K27ac, and H3K27me3) in eight prioritized tissues collected as part of the FAANG equine biobank from two thoroughbred mares. Data were generated according to optimized experimental parameters developed during quality control testing. To ensure that we obtained sufficient ChIP and successful peak-calling, data and peak-calls were assessed using six quality metrics, replicate comparisons, and site-specific evaluations. Tissue specificity was explored by identifying binding motifs within unique active regions, and motifs were further characterized by gene ontology (GO) and protein-protein interaction analyses. The histone marks identified in this study represent some of the first resources for tissue-specific regulation within the equine genome. As such, these publicly available annotation data can be used to advance equine studies investigating health, performance, reproduction, and other traits of economic interest in the horse.
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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.