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

GSE43717

GEO first seen 2014

Cellular source and mechanisms of high transcriptome complexity in the mammalian testis (RNA-Seq cells)

Organism
Mus musculus
Samples
5
Type
Expression profiling by high...
Submitted
2013-01-24

Understanding  the  extent  of  genomic  transcription  and  its  functional  relevance  is  a  central  goal  in  genomics research. However, detailed genome‐wide investigations of transcriptome complexities in major mammalian organs  and  their  underlying  cellular  sources,  transcriptional  mechanisms,  and  functional  relevance  have been  scarce.  Here  we  first  show,  using  extensive  RNA‐seq  data,  that  transcription  of  both  functional  and nonfunctional  genomic  elements  is ...

Provenance — who produced it, who reused it

Linked to 12 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
Magali SoumillonAnamaria NecsuleaManuela WeierDavid BrawandXiaolan ZhangHongcang GuPauline BarthèsMaria KokkinakiSerge NefAndreas GnirkeMartin DymBernard de MassyTarjei S MikkelsenHenrik Kaessmann
Reused by

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

Deep data QC

33/100 · F

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
Mus musculus
Metrics (value · how obtained)
n content pct 0.904 measured
pct q20 bases 81.2 measured
pct q30 bases 8.7 measured
gc content pct 46.6 measured
mean read length 76 measured
mean base quality 23.4 measured
adapter content pct 0 measured
duplication rate pct 10.06 measured
How this grade was computed
Weighted mean of 4 scored metric(s) → 33/100

The F 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 8.7 measured ×1 0%
mean base quality 23.4 measured ×0.6 0%
adapter content pct 0 measured ×0.4 100%
duplication rate pct 10.06 measured ×0.4 100%
QC cost 37 s compute

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