Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE33480

GEO first seen 2012

RNA-seq from ENCODE/Caltech

Organism
Homo sapiens
Samples
24
Type
Expression profiling by high...
Submitted
2011-11-04

This data was generated by ENCODE. If you have questions about the data, contact the submitting laboratory directly (mailto:«email» for data coordination/informatics/experimental questions, mailto:«email» for informatics questions, mailto:«email» for experimental questions). If you have questions about the Genome Browser track associated with this data, contact ENCODE (mailto:«email»). This track is produced as part of the ENCODE Project. RNA-seq is a method for mapping and quantifying the tran...

Provenance — who produced it, who reused it

Linked to 10 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
Ali MortazaviBrian WilliamsGeorgi MarinovDiane TroutBrandon KingKen McCueLorian SchaefferNorma NeffFlorencia PauliFan ZhangTim ReddyRami RauchChris PartridgeGary SchrothShujun LuoEric VermaasCole TrapnellLior PachterSteven Salzberg
Reused by

5 further papers cite this accession but reuse could not be confirmed.

Deep data QC

82/100 · B

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
Homo sapiens
Metrics (value · how obtained)
n content pct 1.144 measured
pct q20 bases 100 measured
pct q30 bases 100 measured
gc content pct 50.6 measured
mean read length 76 measured
mean base quality 30 measured
adapter content pct 3.22 measured
duplication rate pct 26.54 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 82/100

The B 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 100 measured ×1 100%
mean base quality 30 measured ×0.6 33%
adapter content pct 3.22 measured ×0.4 93%
duplication rate pct 26.54 measured ×0.4 100%
QC cost 25 s compute

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