BovineMine
BovineMine integrates the bovine reference genome assembly with many other biological data sets, including genomes of other species. The sheep and goat genomes allow comparison across ruminants. Model organism data (human, mouse, rat) allow well-curated data sets to be applied to ruminants using orthology.
Description
More detailed information about this field from each metasource.
BovineMine integrates the bovine reference genome assembly with many other biological data sets, including genomes of other species. The sheep and goat genomes allow comparison across ruminants. Model organism data (human, mouse, rat) allow well-curated data sets to be applied to ruminants using orthology.
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
An integrated data warehouse for the Bovine Genome Database
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
Webpage:
http://bovinegenome.org/bovinemineWebpage
More detailed information about this field from each metasource.
http://bovinegenome.org/bovinemine
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://genomes.missouri.edu/bovinemine
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
Licence:
Name: LGPL-2.1Licence name
More detailed information about this field from each metasource.
Publications:
Publications
More detailed information about this field from each metasource.
Bovine Genome Database: new tools for gleaning function from the Bos taurus genome
PMID: 26481361
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://dx.doi.org/10.1093/bioinformatics/bts577
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:22.453921
Publications
More detailed information about this field from each metasource.
Bovine Genome Database: new tools for gleaning function from the Bos taurus genome
PMID: 26481361
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://dx.doi.org/10.1093/bioinformatics/bts577
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
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Bovine Genome Database: new tools for gleaning function from the Bos taurus genome
PubMed citations: 45.
45 articles citing: Bovine Genome Database: new tools for gleaning function from the Bos taurus genome
The Agricultural Genome to Phenome Initiative (AG2PI): creating a shared vision across crop and livestock research communities. PMID:34980221
The Role of microRNAs in the Mammary Gland Development, Health, and Function of Cattle, Goats, and Sheep. PMID:34940759
Discovering of Genomic Variations Associated to Growth Traits by GWAS in Braunvieh Cattle. PMID:34828272
iSheep: an Integrated Resource for Sheep Genome, Variant and Phenotype. PMID:34490043
β-Lactoglobulin and Glycodelin: Two Sides of the Same Coin? PMID:34093238
Single nucleotide polymorphisms affect miRNA target prediction in bovine. PMID:33882076
Genome-wide association analysis identified both RNA-seq and DNA variants associated to paratuberculosis in Canadian Holstein cattle 'in vitro' experimentally infected macrophages. PMID:33678157
Genomic Prediction Based on SNP Functional Annotation Using Imputed Whole-Genome Sequence Data in Korean Hanwoo Cattle. PMID:33552124
Metagenomic Quantification of Genes with Internal Standards. PMID:33531401
Improvement of Disease Resistance in Livestock: Application of Immunogenomics and CRISPR/Cas9 Technology. PMID:33260762
Transforming the study of organisms: Phenomic data models and knowledge bases. PMID:33232313
Molecular Dissection of the Antibody Response: Opportunities and Needs for Application in Cattle. PMID:32595642
BGVD: An Integrated Database for Bovine Sequencing Variations and Selective Signatures. PMID:32540200
Using online tools at the Bovine Genome Database to manually annotate genes in the new reference genome. PMID:32537769
A catalog of microbial genes from the bovine rumen unveils a specialized and diverse biomass-degrading environment. PMID:32473013
A Gene-Set Enrichment and Protein-Protein Interaction Network-Based GWAS with Regulatory SNPs Identifies Candidate Genes and Pathways Associated with Carcass Traits in Hanwoo Cattle. PMID:32188084
Transcriptome Analysis of The Inflammatory Responses of Bovine Mammary Epithelial Cells: Exploring Immunomodulatory Target Genes for Bovine Mastitis. PMID:32182886
An Evolutionary Insertion in the Mxra8 Receptor-Binding Site Confers Resistance to Alphavirus Infection and Pathogenesis. PMID:32075743
Survey of mitochondrial sequences integrated into the bovine nuclear genome. PMID:32034268
Whole genome detection of recent selection signatures in Sarabi cattle: a unique Iranian taurine breed. PMID:31808064
Bovine Genome Database: new annotation tools for a new reference genome. PMID:31647100
A Broad Role for Cysteines in Bovine Antibody Diversity. PMID:31619454
Identification of bovine CpG SNPs as potential targets for epigenetic regulation via DNA methylation. PMID:31513639
The Caribou (Rangifer tarandus) Genome. PMID:31319535
Transcriptome Analyses Reveal Effects of Vitamin C-Treated Donor Cells on Cloned Bovine Embryo Development. PMID:31142052
Bovine leukemia virus proviral load is more strongly associated with bovine major histocompatibility complex class II DRB3 polymorphism than with DQA1 polymorphism in Holstein cow in Japan. PMID:31096993
Physiological profile of undifferentiated bovine blastocyst-derived trophoblasts. PMID:30952696
Analysis of a large dataset reveals haplotypes carrying putatively recessive lethal and semi-lethal alleles with pleiotropic effects on economically important traits in beef cattle. PMID:30836944
In silico identification of conserved miRNAs and their selective target gene prediction in indicine (Bos indicus) cattle. PMID:30365525
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. PMID:30239679
Functional Partitioning of Genomic Variance and Genome-Wide Association Study for Carcass Traits in Korean Hanwoo Cattle Using Imputed Sequence Level SNP Data. PMID:29988410
A system-based analysis of the genetic determinism of udder conformation and health phenotypes across three French dairy cattle breeds. PMID:29965995
Comparative transcriptome analysis to investigate the potential role of miRNAs in milk protein/fat quality. PMID:29674689
Comprehensive analysis of blood cells and plasma identifies tissue-specific miRNAs as potential novel circulating biomarkers in cattle. PMID:29636028
Mammalian genomic regulatory regions predicted by utilizing human genomics, transcriptomics, and epigenetics data. PMID:29618048
Weighting genomic and genealogical information for genetic parameter estimation and breeding value prediction in tropical beef cattle. PMID:29385460
Constructing a comprehensive gene co-expression based interactome in Bos taurus. PMID:29226034
Changes in circulating microRNA levels can be identified as early as day 8 of pregnancy in cattle. PMID:28380001
Blubber transcriptome response to acute stress axis activation involves transient changes in adipogenesis and lipolysis in a fasting-adapted marine mammal. PMID:28186107
Breed and adaptive response modulate bovine peripheral blood cells' transcriptome. PMID:28149510
Elucidating the genetic basis of an oligogenic birth defect using whole genome sequence data in a non-model organism, Bubalus bubalis. PMID:28045068
Circular RNAs are down-regulated in KRAS mutant colon cancer cells and can be transferred to exosomes. PMID:27892494
Comparison of gene-based rare variant association mapping methods for quantitative traits in a bovine population with complex familial relationships. PMID:27534618
Circulating microRNA Profiles during the Bovine Oestrous Cycle. PMID:27340826
Global assessment of imprinted gene expression in the bovine conceptus by next generation sequencing. PMID:27245094 - http://dx.doi.org/10.1093/bioinformatics/bts577
Tags:
Tags
More detailed information about this field from each metasource.
gene
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
homologous
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
model organism
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular function
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
orthologous
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
data management
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:22.453921
genomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:22.453921
proteomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:31:22.453921
Tags
More detailed information about this field from each metasource.
gene
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
homologous
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
model organism
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular function
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
molecular interaction
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
orthologous
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: BovineMine; BovineMine; DOI: https://doi.org/10.25504/FAIRsharing.2Fwl0E; Last edited: March 19, 2021, 1:16 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
data management
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
genomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
proteomics
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:31:22.453921
gene homologous model organism molecular function molecular interaction orthology protein data management genomics proteomics
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