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Due to system maintenance, the application system, application review by the Data Access Committee will be unavailable during the following period.
Schedule: October 5th (Mon), 2026, 9:00 - October 7th (Wed), 2026, 15:00 (JST)
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Following a change to our organizational structure effective April 1, 2026, this division has been renamed from the "Database Center for Life Science, Joint Support-Center for Data Science Research" to the "Database Division for Life Science (DBCLS), BioData Science Initiative (BSI), National Institute of Genetics (NIG)". Where the former name still appears in the guidelines, please read it as the new name.

Dataset ID

E-GEAD-1308

Type of data
NGS (scRNA-seq)
Access criteria
Unrestricted-access
Total data volume
234 MB
File formats
  • TXT
  • HDF5
Research
hum0600
Date published
2026-09-07
Date modified
2026-09-07
DDBJ Search
E-GEAD-1308 (opens in a new tab)

Analysis method

scRNA-seq

Materials and participants
undifferentiated thyroid carcinoma (ICD10: C73): 3 cases
tumor tissue: 3 samples
papillary thyroid carcinoma (ICD10: C73): 3 cases
tumor tissue: 3 samples
  • Health status
    Affected
  • Subject count
    6 (Individual)
  • Population
    Japanese
Disease
undifferentiated thyroid carcinoma (C73)
papillary thyroid carcinoma (C73)
Sample description
RNA extracted from a single cell isolated from tumor tissues
  • Tumor / normal
    Tumor
Sample provider
N/A
Experimental method
scRNA-seq
Target
N/A
Reagent kit
Chromium Next GEM Single Cell 3' v3.1
Fragmentation
Enzymatic fragmentation
Platform
Illumina HiSeq X
Read type
Paired-end
Read length
90 bp
Reference genome
GRCh38
Mapping
STAR
QC and filtering
Using the Seurat package in R, low-quality cells were removed by discarding the bottom and top 0.5% tails of the nFeature_RNA distribution per sample and cells with high mitochondrial content (percent.mt ≥ 80%). Doublets were identified with DoubletFinder (version 2.0.6).
Analysis method
Cell Ranger (v7.1.0)
Gene count
30,000–40,000 genes (Approx.)
Processed data type
Gene expression matrix
Data use policy
NBDC data sharing policy (JGAP000001)