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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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Dataset ID

JGAD000853

Type of data
NGS (scRNA-seq, TCR-seq, CITE-seq)
Access criteria
Controlled-access (Type I)
Total data volume
482 GB
File formats
  • FASTQ
Research
hum0522
Date published
2025-06-27
Date modified
2025-12-11
DDBJ Search
JGAD000853 (opens in a new tab)
JGA Study
JGAS000720 (opens in a new tab)

Analysis method

scRNA-seq

Materials and participants
Esophagogastric junction cancer (ICD10: C15.8): 2 cases
1) Blood, tumor, metastatic lymph nod, and non-metastatic lymph node: total 4 samples
2) Blood, metastatic liver cancer, and non-metastatic lymph node: total 3 samples
Gastric cancer (ICD10: C16.9): 3 cases
3) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
4) Blood, tumor, metastatic lymph node, and non-metastatic lymph node: total 4 samples
5) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
  • Health status
    Affected
  • Subject count
    19 (Sample)
Disease
Esophagogastric junction cancer (C158)
Gastric cancer (C169)
Sample description
RNAs extracted from T cells isolated from peripheral blood sample
  • Tissue
    Liver, Lymph node, Peripheral blood, Stomach
  • Tumor / normal
    Mixed
Sample provider
N/A
Experimental method
scRNA-seq
Target
N/A
Reagent kit
Chromium Next GEM Chip K Single Cell Kit
Chromium Next GEM Single Cell 5' v2
Fragmentation
included in the above library construction kit
Platform
Illumina NovaSeq 6000
MGI DNBSEQ-G400
Read type
Paired-end
Read length
91 bp
Data use policy
NBDC data sharing policy (JGAP000001)

TCR-seq

Materials and participants
Esophagogastric junction cancer (ICD10: C15.8): 2 cases
1) Blood, tumor, metastatic lymph nod, and non-metastatic lymph node: total 4 samples
2) Blood, metastatic liver cancer, and non-metastatic lymph node: total 3 samples
Gastric cancer (ICD10: C16.9): 3 cases
3) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
4) Blood, tumor, metastatic lymph node, and non-metastatic lymph node: total 4 samples
5) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
  • Health status
    Affected
  • Subject count
    19 (Sample)
Disease
Esophagogastric junction cancer (C158)
Gastric cancer (C169)
Sample description
RNAs extracted from T cells isolated from samples
  • Tissue
    Liver, Lymph node, Peripheral blood, Stomach
  • Tumor / normal
    Mixed
Sample provider
N/A
Experimental method
TCR-seq
Target
N/A
Reagent kit
Chromium Next GEM Chip K Single Cell Kit
Chromium Single Cell Human TCR Amplification Kit
Fragmentation
included in the above library construction kit
Platform
Illumina NovaSeq 6000
MGI DNBSEQ-G400
Read type
Paired-end
Read length
91 bp
Data use policy
NBDC data sharing policy (JGAP000001)

CITE-seq

Materials and participants
Esophagogastric junction cancer (ICD10: C15.8): 2 cases
1) Blood, tumor, metastatic lymph nod, and non-metastatic lymph node: total 4 samples
2) Blood, metastatic liver cancer, and non-metastatic lymph node: total 3 samples
Gastric cancer (ICD10: C16.9): 3 cases
3) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
4) Blood, tumor, metastatic lymph node, and non-metastatic lymph node: total 4 samples
5) Blood, tumor, and 2 non-metastatic lymph nodes: total 4 samples
  • Health status
    Affected
  • Subject count
    19 (Sample)
Disease
Esophagogastric junction cancer (C158)
Gastric cancer (C169)
Sample description
RNAs extracted from T cells isolated from samples
  • Tissue
    Liver, Lymph node, Peripheral blood, Stomach
  • Tumor / normal
    Mixed
Sample provider
N/A
Experimental method
CITE-seq
Target
N/A
Reagent kit
Chromium Next GEM Chip K Single Cell Kit
Chromium Next GEM Single Cell 5' v2
Fragmentation
included in the above library construction kit
Platform
Illumina NovaSeq 6000
MGI DNBSEQ-G400
Read type
Paired-end
Read length
91 bp
Data use policy
NBDC data sharing policy (JGAP000001)