|
Status |
Public on Aug 31, 2018 |
Title |
Donor 1 MCTL |
Sample type |
SRA |
|
|
Source name |
T cells
|
Organism |
Homo sapiens |
Characteristics |
cell type: Monocytotoxic cells exprssion pattern: CD3+ GZMB+, PRF-,GNLY- donor: Donor 1
|
Treatment protocol |
PBMC were acquired from peripheral blood,cells were surfaced stained with CD3, then intracellularly stained with Granzyme B, perforin and granulysin. Subsets of cytotoxic CD3 postiive cells were sorted.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was isolated according to the MARIS protocol (Hrvatin, S et al. MARIS: method for analyzing RNA following intracellular sorting. 2014 PLoS One Vol 9, e89459) RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
donor 1 monocytotoxic cells Donor 1 normalized counts GEO.csv
|
Data processing |
Sequenced reads were aligned to the human reference genome (build hg19 UCSC) using TopHat and Bowtie2. Raw counts were calculated with HTseq using the hg19 Ensembl annotation. Genome_build: hg19 Supplementary_files_format_and_content: comma-separated values file containing raw counts of mapped reads
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|
|
Submission date |
Jun 12, 2018 |
Last update date |
Aug 31, 2018 |
Contact name |
Samuel Jackson Balin |
E-mail(s) |
sbalin@mednet.ucla.edu
|
Phone |
3108256911
|
Organization name |
UCLA
|
Street address |
10833 Le Conte Ave, Div of Dermatology, 52-121 CHS
|
City |
Los Angeles |
State/province |
CA |
ZIP/Postal code |
90095-3075 |
Country |
USA |
|
|
Platform ID |
GPL16791 |
Series (1) |
GSE115686 |
Human antimicrobial cytotoxic T lymphocytes, defined by NK receptors and antimicrobial proteins, kill intracellular bacteria |
|
Relations |
BioSample |
SAMN09401608 |
SRA |
SRX4198450 |