Angus Sequence Data: Whole Genome for Bovine Germplasm Repository 16378

420 total paired-end sequencing reads from a single Angus beef cattle (Bos taurus) individual, repository number 16378. The data is provided in FASTQ format by the USDA's National Animal Germplasm Program. A tar file contains 14 compressed files representing forward and reverse reads from multiple sequencing runs.

Use Cases

• Assemble a reference genome for the Angus breed based on whole genome sequence data.
• Conduct variant calling and SNP discovery for cattle based on paired-end reads.
• Analyze genetic diversity within beef cattle germplasm collections using sequence data from a specific repository animal.
• Benchmark FASTQ processing and alignment tools using real paired-end sequencing data.

Strengths

• Data is paired-end sequenced, providing forward and reverse reads for 210 data lines, summing to 420 total reads.
• Originates from the USDA's National Animal Germplasm Program, a known authoritative source for animal genetic resources.
• Files are named with detailed identifiers suggesting sequencing lane, index, and sample information.

Limitations

• Description metadata is limited; actual data quality requires manual inspection after download.
• Row count is unknown, which may limit suitability assessment for large-scale genomic studies.
• The dataset appears to contain sequence data for a single animal, limiting population-level analyses.

Provenance

Source

USDA Department of Agriculture, National Animal Germplasm Program.

Collection Method

Paired-end whole genome sequencing, likely by RAPiD-Genomics.

Time Range

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Freshness

Last updated 2026-03 13 22:45:01.164440; freshness should be verified.

Geography

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