Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE55435

GEO first seen 2014

Multi-Tissue Omics Analyses Reveals Molecular Regulatory Networks for Puberty in Composite Beef Cattle

Organism
Bos taurus
Samples
61
Type
Expression profiling by high...
Submitted
2014-02-27

Puberty is a complex physiological event measured by various indicator traits in genetic improvement programs of beef cattle; thus, developing a more complete understanding of the genes and regulatory pathways and networks involved in puberty will provide knowledge to help improve genetic selection strategies. Herein, we characterized the transcriptome of five reproductive tissues (i.e. hypothalamus, pituitary gland, ovary, uterus, and endometrium) as well as tissues known to be relevant to grow...

Provenance — who produced it, who reused it

Linked to 2 papers in the literature. Roles are inferred factual signals (who deposited the data vs who reused it), with counts — never a judgement about any author.

Deposited / produced by
Angela CánovasAntonio ReverterKasey L DeAtleyRyan L AshleyMichelle L ColgraveMarina S FortesAlma Islas-TrejoSigrid LehnertLaercio Porto-NetoGonzalo RincónGail A SilverWarren M SnellingJuan F MedranoMilton G Thomas
Reused by

1 further paper cites this accession but reuse could not be confirmed.

Deep data QC

95/100 · A

Standardized, field-standard QC computed by touching the data — every metric states how it was obtained · evidence: measured

Data type / assay
bulk-RNA-seq
Organism
Bos taurus
Instrument
Illumina Genome Analyzer II
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
61 / 61 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 176797459805 reported
total reads 1806261738 reported
n content pct 0.017 measured
pct q20 bases 94 measured
pct q30 bases 87.6 measured
gc content pct 48.4 measured
mean read length 100 measured
mean base quality 34.6 measured
adapter content pct 1.11 measured
duplication rate pct 10.66 measured
supplementary file types XLSX reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 95/100

The A grade is a transparent weighted average. Each metric below scored from 0–100% against the published bulk-RNA-seq thresholds, weighted by its importance; nothing is hidden or subjective.

pct q30 bases 87.6 measured ×1 88%
mean base quality 34.6 measured ×0.6 100%
adapter content pct 1.11 measured ×0.4 100%
duplication rate pct 10.66 measured ×0.4 100%
QC cost 20 s compute

measured = computed from the data · extrapolated/reported = derived or from the repository · dq-1.0