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Series GSE92495 Query DataSets for GSE92495
Status Public on Feb 17, 2017
Title Seq-Well: A portable, low-cost platform for single-cell RNA-seq of low-input samples
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Single-cell RNA -seq can precisely resolve cellular states, but applying this method to low-input samples is challenging. Here, we present Seq-Well, a portable, low-cost platform for massively parallel single-cell RNA -seq. Barcoded mRNA capture beads and single cells are sealed in an array of subnanoliter wells using a semipermeable membrane, enabling efficient cell lysis and transcript capture. We characterize Seq-Well extensively and use it to profile thousands of primary human macrophages exposed to tuberculosis.
Overall design Single-cell RNA sequencing experiments of HEK/3T3 mixing, PBMCs, and TB-exposed Macrophages.
Contributor(s) Shalek AK, Hughes TK
Citation(s) 28192419
Submission date Dec 16, 2016
Last update date May 15, 2019
Contact name Alex Shalek
Organization name Massachusetts Institute of Technology
Department Chemistry
Lab Shalek Lab
Street address 77 Masachusetts Ave
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platforms (2)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL19415 Illumina NextSeq 500 (Homo sapiens; Mus musculus)
Samples (7)
GSM2486329 Species Mixing 1 (HEK + 3T3)
GSM2486330 Species Mixing 2 (HEK + 3T3)
GSM2486331 HEK Single cells
BioProject PRJNA374551
SRA SRP099447

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
GSE92495_MTB.txt.gz 120.7 Mb (ftp)(http) TXT
GSE92495_RAW.tar 45.8 Mb (http)(custom) TAR (of TXT)
GSE92495_Sample_Processing_Pipeline.txt.gz 1.8 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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