Data · dataset · 2026
RNA-seq data
Listed in ScienceDB
This dataset comprises bulk RNA-sequencing profiles derived from colonic tumor tissues of mice, with three biological replicates per experimental group.
Description
Total RNA was isolated using TRIzol reagent, and only high-quality samples (RNA Integrity Number ≥ 6.5) assessed via NanoDrop and Agilent Bioanalyzer were processed. Messenger RNA was enriched using poly-T magnetic beads, fragmented, and converted into cDNA libraries featuring Illumina-compatible adapters, which were sequenced on a NovaSeq 6000 platform to generate 150 bp paired-end reads.
The raw sequencing data were processed using fastp for quality control, aligned to the reference genome with HISAT2/TopHat2, and assembled using StringTie. Differential expression analysis was performed using edgeR or DESeq2, identifying genes with FDR < 0.05 and |log2FC| ≥ 1 as differentially expressed. Functional annotation was conducted through GO and KEGG pathway enrichment analyses using Goatools and KOBAS, respectively.
Links
Where it is published
- DOI doi.org/10.57760/sciencedb.37434 ↗
DOI / persistent id · from scidb cn
Catalogue records · 1
- OAI-PMH record scidb.cn/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=10.57760%2… ↗
metadata API · from scidb cn
Topics
- From keywords
- Earth & Environmental Science · Engineering · Humanities · Life Sciences · Medicine & Health · Social Science
- Inferred from text
- Cancer 65% · Oncology and carcinogenesis 69% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 15 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| ScienceDB | 10.57760/sciencedb.37434 | 9 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[disease].local:disease:cancer | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[field].anzsrc:group:3211 | enrichment · scidb cn | taxonomy-embedding@1.0.0 | title+keywords+description (69%) |
| concepts[field].local:field:earth-environmental | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:engineering | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:humanities | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[field].local:field:social-science | mapping · scidb cn | connector:scidb_cn@1.0.0 | |
| concepts[modality].local:modality:rna-seq | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[modality].local:modality:sequencing | enrichment · scidb cn | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/description |
| license_text | source · scidb cn | connector:scidb_cn@1.0.0 | |
| publication_date | source · scidb cn | connector:scidb_cn@1.0.0 | |
| title | source · scidb cn | connector:scidb_cn@1.0.0 | /metadata/dc/title |