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Series GSE151070 Query DataSets for GSE151070
Status Public on Jun 15, 2020
Title DNA sequencing for multiple rounds of the pMHC-yeast display selection for 2W, Yae and Fat TCR
Organism synthetic construct
Experiment type Other
Summary A peptide library was displayed on Ab MHC class II allele expressed on yeast. TCRs of interest were used to select and enrich for cognate peptide-MHC.
 
Overall design A naive pMHC-yeast display library was selected with biotinylated TCRs of interest present on magnetic beads (Miltenyi) or fluorescently labelled streptavidin. After 4 rounds of TCR selection, DNA was extracted using zymolase for all rounds of selected yeast, enriched for cognate pMHC, as well as the naive library. Isolated DNA/plasmid was amplified by PCR with appropriate barcodes and sequencing was performed using a Miseq.
 
Contributor(s) Garcia KC, Fernandes RA
Citation(s) 32773038
Submission date May 22, 2020
Last update date Aug 24, 2020
Contact name Ricardo A Fernandes
E-mail(s) ralexandrelf@gmail.com
Organization name Stanford University
Department Molecular and Cellular Physiology
Lab KC Garcia Beckman Bldg
Street address 279 Campus Drive
City Stanford
State/province California
ZIP/Postal code 94301
Country USA
 
Platforms (1)
GPL17769 Illumina MiSeq (synthetic construct)
Samples (2)
GSM4565821 Multiple libraries 1
GSM4565822 Multiple libraries 2
Relations
BioProject PRJNA634545
SRA SRP262990

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
GSE151070_2w_20161109_uniques_stats.csv.gz 9.3 Kb (ftp)(http) CSV
GSE151070_2w_Round3.pfam.txt.gz 5.3 Mb (ftp)(http) TXT
GSE151070_2w_Round4.pfam.txt.gz 7.2 Mb (ftp)(http) TXT
GSE151070_Fat_Round3.pfam.txt.gz 5.9 Mb (ftp)(http) TXT
GSE151070_Fat_Round4.pfam.txt.gz 7.2 Mb (ftp)(http) TXT
GSE151070_Fat_sclean_uniques_stats.csv.gz 30.9 Kb (ftp)(http) CSV
GSE151070_effector1_Round3.pfam.txt.gz 6.0 Mb (ftp)(http) TXT
GSE151070_effector1_round4.pfam.txt.gz 1.4 Mb (ftp)(http) TXT
GSE151070_mediummay_naive.fasta.gz 22.5 Mb (ftp)(http) FASTA
GSE151070_readme.xls 32.0 Kb (ftp)(http) XLS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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