Omics · study · 2026
Intact Cell Dissociation of FFPE Colon Tissue Enhances Cell Recovery and Gene Detection in scRNA-seq
Listed in NCBI GEO
Formalin-fixed, paraffin-embedded (FFPE) tissues present challenges for transcriptomic profiling due to RNA crosslinking and fragmentation.
Description
The 10x Genomics Chromium Fixed RNA Profiling (Flex) platform is designed for single-nucleus profiling of FFPE tissue. Here, we extend this workflow by implementing a whole-cell dissociation approach for FFPE colorectal tissue to improve epithelial cell recovery and compare its performance with the standard single-nucleus dissociation protocol.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE338nnn/GSE338505 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE338505 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1494591 ncbi.nlm.nih.gov/bioproject/PRJNA1494591 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Single-cell RNA sequencing 65%
Provenance · 1 source records, 8 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE338505 | 12 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:single-cell-rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[organism].NCBITaxon:9606 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |