Corpus 1,272 assessed · 1,173 scored · 643 reproduced ≥75 · 168 flagged ·∅ 74.1/100
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GSE72509

GEO first seen 2018

SLE lupus RNA-seq

Organism
Homo sapiens
Samples
117
Type
Expression profiling by high...
Submitted
2015-08-28

RNA-seq of systemic lupus erythematosus (SLE) whole blood and healthy controls to determine the gene expression changes in these patients.

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
Tiffany HungTimothy BehrensMichael TownsendChristina ChaivoropolWard OrtmannTushar Bhangale
Reused by

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

Deep data QC

97/100 · 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
Homo sapiens
Instrument
Illumina HiSeq 2500
Platform
ILLUMINA
Read type
short-read
Files available
FASTQ (raw reads)
N numbers (samples, groups)
117 / 117 runs
Completeness
100%
Metrics (value · how obtained)
checksum ok yes reported
total bases 613756721400 reported
total reads 12275134428 reported
n content pct 0.007 measured
pct q20 bases 98.4 measured
pct q30 bases 95.7 measured
gc content pct 54 measured
mean read length 50 measured
mean base quality 37.5 measured
adapter content pct 0.03 measured
duplication rate pct 39.26 measured
supplementary file types TXT reported
How this grade was computed
Weighted mean of 4 scored metric(s) → 97/100

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 95.7 measured ×1 100%
mean base quality 37.5 measured ×0.6 100%
adapter content pct 0.03 measured ×0.4 100%
duplication rate pct 39.26 measured ×0.4 79%
QC cost 29 s compute

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