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Status |
Public on Oct 16, 2019 |
Title |
Single Cell RNAseq profiles of thymic ETP populations |
Organism |
Mus musculus |
Experiment type |
Expression profiling by high throughput sequencing
|
Summary |
The single cell profiles of sorted ETP populations with cell hashing antibody barcoding from mouse thymus
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Overall design |
Examination of single cell expression profile of sorted populations identified from previous pseudotime analysis. Experiment was performed using droplet-based 3′ end RNA expression profiling using Chromium Single Cell 3′ Reagent Kits v3 according to manufacturer’s protocol (10x Genomics), with the FACS sorted individual sub-populations of ETPs tagged with Totalseq-A hashtags (Biolegend). The cDNA library was sequenced on Illumina Novaseq for 400 million reads, and tag library on HiSeq4000 for 20 million reads, both in pair-end mode following manufacturer's instructions. Please note that meta.csv.gz contains assigned sample names of individual cells after demultiplexing
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Contributor(s) |
Zhou W, Yui MA, Williams BA, Yun J, Wold BJ, Cai L, Rothenberg EV |
Citation(s) |
31629685 |
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Submission date |
Sep 09, 2019 |
Last update date |
Jan 15, 2020 |
Contact name |
Wen Zhou |
E-mail(s) |
wenzhou.caltech@gmail.com
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Phone |
6263954915
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Organization name |
California Institute of Technology
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Department |
BBE
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Lab |
Ellen Rothenberg
|
Street address |
1200 E California Blvd, Mail Code 250-86
|
City |
Pasadena |
State/province |
California |
ZIP/Postal code |
91125 |
Country |
USA |
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Platforms (2) |
GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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Samples (2) |
GSM4072329 |
Sorted 4 ETP subpopulations and ETP-DN2 controls |
GSM4072330 |
Antibody sample tag library for ETP subpop |
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Relations |
BioProject |
PRJNA564688 |
SRA |
SRP221183 |