ArticleGenome biology2010
An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation.
Article in Genome biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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37 citing papers in PubMed, 65 citations in OpenAlex.
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- Transcriptomic profiling of rumen epithelium, liver, and muscle reveals tissue-specific gene expression patterns in Hu sheep.BMC genomics · 2025Article
- Mammary gland multi-omics data reveals new genetic insights into milk production traits in dairy cattle.PLoS genetics · 2025Article
- An mRNA expression atlas for the duck with public RNA-seq datasets.BMC genomics · 2025Article
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- BuffExDb: web-based tissue-specific gene expression resource for breeding and conservation programmes in Bubalus bubalis.Database : the journal of biological databases and curation · 2025Article
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- Lactoferrin, Osteopontin and Lactoferrin-Osteopontin Complex: A Critical Look on Their Role in Perinatal Period and Cardiometabolic Disorders.Nutrients · 2023Review
- A protein-coding gene expression atlas from the brain of pregnant and non-pregnant goats.Frontiers in genetics · 2023Article
- Comparative transcriptomic analysis reveals region-specific expression patterns in different beef cuts.BMC genomics · 2022Article
- Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle.BMC biology · 2022Article
- Network Analyses Predict Small RNAs That Might Modulate Gene Expression in the Testis and Epididymis ofFrontiers in genetics · 2021Article
- Expression of mitochondrial protein genes encoded by nuclear and mitochondrial genomes correlate with energy metabolism in dairy cattle.BMC genomics · 2020Article
- Comprehensive analyses of 723 transcriptomes enhance genetic and biological interpretations for complex traits in cattle.Genome research · 2020Article
- Genetic and epigenetic architecture of paternal origin contribute to gestation length in cattle.Communications biology · 2019Article
- Article
- A comprehensive manually-curated compendium of bovine transcription factors.Scientific reports · 2018Article
- An intersection network based on combining SNP coassociation and RNA coexpression networks for feed utilization traits in Japanese Black cattle.Journal of animal science · 2018Article
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Authors and funding
12 authors at 5 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundA comprehensive transcriptome survey, or gene atlas, provides information essential for a complete understanding of the genomic biology of an organism. We present an atlas of RNA abundance for 92 adult, juvenile and fetal cattle tissues and three cattle cell lines.
resultsThe Bovine Gene Atlas was generated from 7.2 million unique digital gene expression tag sequences (300.2 million total raw tag sequences), from which 1.59 million unique tag sequences were identified that mapped to the draft bovine genome accounting for 85% of the total raw tag abundance. Filtering these tags yielded 87,764 unique tag sequences that unambiguously mapped to 16,517 annotated protein-coding loci in the draft genome accounting for 45% of the total raw tag abundance. Clustering of tissues based on tag abundance profiles generally confirmed ontology classification based on anatomy. There were 5,429 constitutively expressed loci and 3,445 constitutively expressed unique tag sequences mapping outside annotated gene boundaries that represent a resource for enhancing current gene models. Physical measures such as inferred transcript length or antisense tag abundance identified tissues with atypical transcriptional tag profiles. We report for the first time the tissue-specific variation in the proportion of mitochondrial transcriptional tag abundance.
conclusionsThe Bovine Gene Atlas is the deepest and broadest transcriptome survey of any livestock genome to date. Commonalities and variation in sense and antisense transcript tag profiles identified in different tissues facilitate the examination of the relationship between gene expression, tissue, and gene function.
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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.