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Series GSE235508 Query DataSets for GSE235508
Status Public on Dec 02, 2023
Title Single-cell resolution of longitudinal blood transcriptome profiles in rheumatoid arthritis, systemic lupus erythematosus and healthy control pregnancies
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Rheumatoid arthritis (RA), Systemic Lupus Erythematosus (SLE) are genetically the most closely related of the major rheumatic diseases as they share components of the type I IFN signalling pathway linked to treatment response and disease activity. One difference between the two is how they respond to pregnancy; while RA often improves, SLE is prone to flare. Multiple mechanisms contribute to immunological tolerance of the foetus during pregnancy. More research involving comparative analyses is needed, however, as understanding how pregnancy-related immune-modulation differs in RA and SLE can potentially lead to better treatment options. We provide data from a cohort of women with universal accessibility to health care that have been followed closely throughout their pregnancies, are well regulated and have low disease activity. We analysed samples both by bulk- and scRNA-seq, and ran a cell-type estimation, validated by flow cytometry, before combining this in a cell-type adjusted analysis. This novel comparative approach gives an improved resolution of expression profiles in RA and SLE pregnancies.
Overall design 335 whole blood samples from 84 RA, SLE, and healthy controls before pregnancy, at each trimester, 6 weeks, 6 months, and 12 months postpartum were analysed. We ran bulk and single cell RNA analyses and then combined these for cell-type estimation, validated by flow cytometry. These results were then used in a cell-type adjusted analysis for an improved resolution of unrecognized gene expression changes associated with RA and SLE pregnancies.
Authors state:
The raw data are personal sensitive data and cannot be submitted due to Norwegian legal constraints.
Web link
Contributor(s) Lien HT, Pedersen TT, Jakobsen B, Flatberg A, Chawla K, Særtom P, Fenstad MH
Citation(s) 38049980
Submission date Jun 21, 2023
Last update date Dec 08, 2023
Contact name Pål Sætrom
Phone +4798203874
Organization name Norwegian University of Science and Technology, NTNU
Department Clinical and Molecular Medicine
Street address Erling Skjalgsons gate 1
City Trondheim
ZIP/Postal code 7491
Country Norway
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (335)
GSM7504086 S1P1_HEALTHY5
GSM7504087 S2P2_HEALTHY1
GSM7504088 S3P3_SPRA5
BioProject PRJNA986163

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE235508_mRNA_counts.txt.gz 24.9 Mb (ftp)(http) TXT
Raw data not provided for this record
Processed data are available on Series record

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