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Series GSE113938 Query DataSets for GSE113938
Status Public on Dec 21, 2018
Title Heavy chain immunoglobulin sequencing of Lyme disease PBMCs
Organism Homo sapiens
Experiment type Other
Summary Lyme disease (Borrelia burgdorferi infection) is increasingly recognized as a significant source of morbidity world-wide. Here, we investigated B cell responses to Lyme disease through molecular identifier-enabled antibody heavy chain sequencing of bulk B cells from PBMCs. Single-cell immunoglobulin sequencing of paired heavy- and light-chain genes from this project will also be separately deposited. Additional information regarding patient characteristics and overlap with other data from the SLICE study is available upon request.
Overall design Total mRNA was isolated from peripheral blood mononuclear cells (PBMCs) of Lyme disease patients at four timepoints:
Visit 1, Untreated acute infection; Visit 3, one month after completion of treatment; Visit 5, six months after treatment; Visit 7, two years after treatment.
Total mRNA was isolated from peripheral blood mononuclear cells (PBMCs) of Healthy controls at three timepoints:
Visit H2, initial visit; Visit H3, six months after initial; Visit H4, one year after initial visit.
cDNA was tagged with unique molecular identifiers, amplified with primers specific for immunoglobulin constant regions, and sequenced by HiSeq 2500.
Contributor(s) Blum L, Robinson WH, Rebman A
Citation(s) 30072990
Submission date May 01, 2018
Last update date Mar 27, 2019
Contact name Lisa K Blum
Phone 805-234-7162
Organization name Stanford University
Lab William H. Robinson
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (71)
GSM3123876 LymeDisease Pt15 Visit1
GSM3123877 LymeDisease Pt15 Visit3
GSM3123878 LymeDisease Pt15 Visit5
This SubSeries is part of SuperSeries:
GSE114310 Immunoglobulin sequencing of Lyme disease individuals
BioProject PRJNA454501
SRA SRP144230

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Supplementary file Size Download File type/resource
GSE113938_RAW.tar 235.0 Mb (http)(custom) TAR (of FASTQ)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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