NBDC Research ID: hum0379.v1

 

SUMMARY

Aims: Analysis of immune cells in autoimmune diseases

Methods: single-cell RNA+VDJ-seq

Participants/Materials: myasthenia gravis (MG) 2 cases, multiple sclerosis (MS) 4 cases, systemic lupus erythematosus (SLE) 3 cases, 3 healthy cases

 

Dataset IDType of DataCriteriaRelease Date
JGAS000578 NGS (scRNA-seq, scVDJ-seq) Controlled-access (Type I) 2023/11/20

*Release Note

*Data users need to apply an application for Using NBDC Human Data to reach the Controlled-access Data. Learn more

 

MOLECULAR DATA

JGAS000578

Participants/Materials

MG (ICD10: G70.0): 2 cases (CD4+ T cell and B cell specimens each)

MS (ICD10: G35): 4 cases (3 cases of CD4+ T cell and B cell specimens each + 1 mixed CD4+ T cell and B cell specimen)

SLE (ICD10: M32.9): 3 cases (3 cases of CD4+ T cell and B cell specimens each + 1 CD4+ T cell pecimen)

3 healthy cases (CD4+ T cell and B cell specimens each)

Targets scRNA-seq and scVDJ-seq
Target Loci for Capture Methods -
Platform Illumina [NovaSeq 6000]
Library Source RNAs extracted from CD4+ T cell and B cell isolated from peripheral blood
Cell Lines -
Library Construction (kit name)

scRNA-seq: Chromium Next GEM Single Cell 5’ Kit v2

scVDJ-seq: Chromium Single Cell Human BCR Amplification Kit or Chromium Single Cell Human TCR Amplification Kit

Fragmentation Methods included in the above library construction kit
Spot Type Paired-end
Read Length (without Barcodes, Adaptors, Primers, and Linkers) 91 bp
Japanese Genotype-phenotype Archive Dataset ID JGAD000704
Total Data Volume 511 GB (fastq)
Comments (Policies) NBDC policy

 

DATA PROVIDER

Principal Investigator: Shimon Sakaguchi

Affiliation: Experimental Immunology, IFReC, Osaka University

Project / Group Name: -

NameTitleProject Number
KAKENHI Grant-in-Aid for Specially Promoted Research Study of the function and development of regulatory T cells 16H06295
Leading Advanced Projects for medical innovation (LEAP), Advanced Research & Development Programs for Medical Innovation, Japan Agency for Medical Research and Development (AMED) Study of Immunoregulatory technology targeting regulatory T cells JP18gm0010005

 

PUBLICATIONS

TitleDOIDataset ID
1
2

 

USRES (Controlled-access Data)

Principal InvestigatorAffiliationCountry/RegionResearch TitleData in Use (Dataset ID)Period of Data Use