Gather the context
Connect run, sample, study, and publication records across public sources.
Metadata infrastructure for biomedical research
The missing context in public RNA-seq.
reOmics is developing auditable metadata for human RNA-seq. The first milestone is a validated cohort table, designed to support future search and targeted expression and splicing evidence for drug-development research.
NOW / STAGE 1Metadata curation in development
PUBLIC DATA / HUMAN RNA-SEQCONTEXT MAP ↗
01 / SOURCERUNassay · layout · accession
02 / SOURCESAMPLEattributes · organism · tissue
03 / SOURCESTUDYdesign · cohort · publication
STRUCTURED CONTEXTPROPOSED
tissuenormalized label
diseasemapped term
studylinked source
provenancetraceable
RAW RECORDS→REVIEWABLE CONTEXT
THE BOTTLENECKPublic data, fragmented descriptions
FIRST DELIVERABLEAuditable human cohort tables
LONGER-TERM PRODUCTQueryable and targeted evidence
01 / THE CHALLENGEA vast archive.
A vast archive.
An incomplete index.
Sequencing files are abundant. The details that make them useful can be scattered across records, buried in free text, or absent altogether.
Before researchers can compare samples, they need to know which tissue, disease, subject, treatment, and experiment each sample represents.
See the data challengeONE SAMPLE / MULTIPLE SOURCESILLUSTRATIVE VIEW
01
SRARun and assay
A technical record02
BioSampleSample attributes
Fragments of biology03
GEOStudy description
A piece of the cohortTHE MISSING CONNECTIONWhat does this sample actually represent?
02 / THE APPROACHMake the data
Make the data
mean something.
reOmics starts with auditable metadata curation. Search and prioritized processing are planned stages built on that foundation.
Make it legible
Extract and normalize tissue, disease, assay, and cohort descriptors with a reviewable evidence trail.
Ask better questions
Use curated cohorts to guide search and prioritize deeper expression and splicing analysis.
STAGED PLATFORM ROADMAPMetadata → discovery → deeper evidence
03 / THE FOUNDATION
A label is only useful when you can trace it.
reOmics aims to turn fragmented descriptions into structured fields, with source links, confidence, and review status attached to the record.
How the platform is plannedPROPOSED METADATA SCHEMAFIELD GROUPS / 04
01
Biological context
Tissue · disease · cell type · phenotype
02
Subject & cohort
Donor · case/control · treatment · timepoint
03
Experiment
Assay · layout · run · sample · study
04
Evidence trail
Publication · provenance · review status · confidence
Every field should have a path back to its source.
04 / SCIENTIFIC LINEAGEExperience at scale.
Experience at scale.
A new focus on context.
Members of the reOmics team contributed to the recount ecosystem. Its published work shows the scale of the processing foundation; reOmics is a separate, developing effort.
316K+human SRA runs in recount3
763K+human and mouse runs processed
990 TBcompressed reads processed
Historical recount3 figures, not reOmics platform totals. Wilks et al., Genome Biology (2021) ↗
05 / RESEARCH APPLICATIONSStart with the right cohort.
Explore applications Start with the right cohort.
Go further with the evidence.
01 / 04
Cohort discovery
Find relevant public studies across tissue, disease, assay, and experimental context.
02 / 04
Target research
Bring comparable expression and splicing evidence to early target questions.
03 / 04
RNA therapeutics
Explore exon and splice-site evidence in cohorts relevant to RNA-directed strategies.
04 / 04
Biomarker research
Study disease-associated transcriptomic patterns with clearer cohort definitions.
06 / PRODUCT PATHAn open foundation.
An open foundation.
Focused research products.
The pitch deck outlines a staged model: make metadata useful and correctable, then develop query access and partner-specific evidence around selected cohorts. These are planned offerings.
Open metadata
Publish curated tables, schemas, and correction workflows to make cohort definitions easier to inspect and improve.
Queryable cohorts
Develop access to disease, tissue, and assay cohorts with provenance and confidence for research teams.
Targeted evidence
Prioritize processing and partner-specific expression or splicing evidence around defined research questions.
Work with reOmics
Start a conversation What could better context reveal for your research?
We welcome conversations about public RNA-seq cohorts, transcriptomic evidence, and research partnerships.