Bos taurus data summary:

Genomic data:

• Bos taurus ARS-UCD 1.3 from Ensembl 112 (10.1093/gigascience/giaa021).
• Bos taurus UMD 3.1 from Ensembl 94 (10.1186/gb-2009-10-4-r42).

Analyses:

• Diamond BLAST v 2.1.9 (10.1038/s41592-021-01101-x) against NCBI's Non-Redundant Protein Sequence Database (NR) database (10.1093/nar/gkac1011) and Uniprot v 2024_04 Swiss-Prot and TrEMBL databases (10.1093/nar/gkac1052), were used to perform automatic annotation against the genome's proteins.
• Diamond BLAST v 2.1.9 (10.1038/s41592-021-01101-x) against InterproScan v 5.67-99.0 (10.1093/bioinformatics/btu031).

SNV data:

• Illumina Bovine HD Beadchip SNVs.
• aseSNV from the research paper (10.1038/s41598-020-67089-0).

QTL data:

• Cattle QTL DB (10.1093/nar/gkab1116).
• aseQTL from the research paper (10.1038/s41598-021-86782-2).

RNA-seq DE data:

• A comprehensive manually-curated compendium of bovine transcription factors.
• Allele-specific expression is widespread in Bos indicus muscle and affects meat quality candidate genes.
• Comparative muscle transcriptome associated with carcass traits of Nellore cattle.
• Detection of Co-expressed Pathway Modules Associated With Mineral Concentration and Meat Quality in Nelore Cattle.
• Differences in the skeletal muscle transcriptome profile associated with extreme values of fatty acids content.
• Gene Co-expression Analysis Indicates Potential Pathways and Regulators of Beef Tenderness in Nellore Cattle.
• Gene expression differences in Longissimus muscle of Nelore steers genetically divergent for residual feed intake.
• Genetic regulators of mineral amount in Nelore cattle muscle predicted by a new co-expression and regulatory impact factor approach.
• Identification of putative regulatory regions and transcription factors associated with intramuscular fat content traits.
• Iron Content Affects Lipogenic Gene Expression in the Muscle of Nelore Beef Cattle.
• Muscle transcriptome analysis reveals genes and metabolic pathways related to mineral concentration in Bos indicus.
• Putative Regulatory Factors Associated with Intramuscular Fat Content.

Bibliography:

• References BibTeX file.