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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.
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Dataset ID

E-GEAD-623

Type of data
NGS (RNA-seq)
Access criteria
Unrestricted-access
Total data volume
738 KB
File formats
  • TXT
  • CSV
Research
hum0406
Date published
2023-08-30
Date modified
2023-08-30
DDBJ Search
E-GEAD-623 (opens in a new tab)

Analysis method

RNA-seq

Materials and participants
Familial interstitial pneumonia with SFTPC variant (ICD10: J84.9): 1 case
- EpCAM+CPM+ or EpCAM-CPM- cells of alveolar organoids derived from iPSCs established from PBMCs of the patient with Y104H variant of SFTPC: 3 samples each
- EpCAM+CPM+ or EpCAM-CPM- cells of Y104H-KO iPSC-derived alveolar organoids established from PBMCs of the patient with Y104H variant of SFTPC: 3 samples each
  • Health status
    Affected
  • Subject count
    1 (Individual)
Disease
Familial interstitial pneumonia with SFTPC variant (J849)
Sample description
RNAs extracted from EpCAM+CPM+ or EpCAM-CPM- cells derived from iPSCs established from PBMCs of a patient with Y104H variant of SFTPC
Sample provider
N/A
Experimental method
RNA-seq
Target
N/A
Reagent kit
Illumina Stranded Total RNA Prep, Ligation with Ribo-Zero Plus
Fragmentation
Exposure to divalent cations at elevated temperatures
Platform
Illumina NextSeq 2000
Read type
Paired-end
Read length
59 bp
Reference genome
GRCh38
Mapping
STAR 2.7.10b
QC and filtering
RSeQC package
Analysis method
HTSeq package
Gene count
36,602 genes
Processed data type
Gene expression matrix
Data use policy
NBDC data sharing policy (JGAP000001)