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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)
We apologize for any inconvenience this may cause and appreciate your understanding.

We are currently receiving a large number of applications for data submission, and the review process is taking longer than usual.We sincerely apologize for the delay and kindly ask for your understanding. When submitting an application, we would greatly appreciate it if you could allow sufficient time for the processing.

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

JGAD000742

Type of data
NGS (Visium Spatial Gene Expression), Histological image
Xenium In Situ Gene Expression
Multiplex Fluorescence Immunostaining
Access criteria
Controlled-access (Type I)
Total data volume
503 GB
File formats
  • FASTQ
  • TSV
  • CSV
  • XLSX
  • JSON
  • MTX
  • CLOUPE
  • HTML
  • PNG
  • QPTIFF
  • TAR
Research
hum0394
Date published
2024-04-05
Date modified
2024-04-05
DDBJ Search
JGAD000742 (opens in a new tab)
JGA Study
JGAS000613 (opens in a new tab)

Unrestricted-access files linked to this dataset

Download the URL list
FileLabelSizeCopy URL
cycle_probe_info.pdfcycle/probe information42.7 KB
gene_list_302.pdf302 genes153 KB

Analysis method

Xenium 空間トランスクリプトーム

Materials and participants
non-small cell lung cancer (ICD10: C349): 5 cases
surgical section: 5 samples
  • Health status
    Affected
  • Subject count
    5 (Individual)
Disease
non-small cell lung cancer (C349)
Sample description
surgical sections (fresh-frozen/FFPE)
  • Tumor / normal
    Tumor
Sample provider
N/A
Experimental method
Spatial transcriptomics
Target
302 genes (Human Lung panel: 202 genes, custom: 100 genes)
Reagent kit
Xenium Decoding Consumables
Xenium Decoding Reagents
Xenium Slides & Sample Prep Reagents
Platform
10x Genomics Xenium Analyzer
Analysis method
xenium-1.1.0.2, xenium-1.2.0.3
Data use policy
NBDC data sharing policy (JGAP000001)

Multiplex Fluorescence Immunostaining

Materials and participants
lung adenocarcinoma (ICD10: C349): 3 cases
tumor tissues: 3 samples
  • Health status
    Affected
  • Subject count
    3 (Individual)
Disease
lung adenocarcinoma (C349)
Sample description
tumor tissues of lung adenocarcinomas
  • Tumor / normal
    Tumor
Sample provider
N/A
Experimental method
Multiplex fluorescence immunostaining
Target
cycle/probe information
Sample processing
Cell treatment: Staining Kit for PhenoCycler
Reagent kit
Staining Kit for PhenoCycler
Platform
Akoya Biosciences PhenoCycler
Data use policy
NBDC data sharing policy (JGAP000001)

Visium 空間トランスクリプトーム + 病理画像

Materials and participants
non-small cell lung cancer (ICD10: C349): 8 cases
surgical section: 16 samples
  • Health status
    Affected
  • Subject count
    8 (Individual)
Disease
non-small cell lung cancer (C349)
Sample description
RNAs extracted from surgical sections (fresh-frozen/FFPE)
  • Tumor / normal
    Tumor
Sample provider
N/A
Experimental method
Histological image
Spatial transcriptomics
Target
N/A
Reagent kit
Visium Spatial Gene Expression
Fragmentation
N/A
Platform
Illumina NovaSeq 6000
Read type
Paired-end
Read length
fresh-frozen: 118 bp
FFPE: 78 bp
QC and filtering
N/A
Analysis method
spaceranger-1.2.1, spaceranger-1.3.0
Data use policy
NBDC data sharing policy (JGAP000001)