|
Status |
Public on Sep 21, 2019 |
Title |
CD4+CD25high_2 |
Sample type |
SRA |
|
|
Source name |
peripheral blood
|
Organism |
Canis lupus |
Characteristics |
sorted cell: CD4+CD25high animal: healthy dog_2
|
Extracted molecule |
total RNA |
Extraction protocol |
CD4+CD25high and CD4+CD25neg cells were sorted from peripheral blood mononuclear cells and sorted by FACS. Total RNA was extracted from cells using RNA Bee and Direct-zol RNA MicroPrep Kit. RNA libraries were generated following standard Illumina protocols.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Description |
GAR3761A1-13_tpm_gene_count_table.txt [GAR3761A2]
|
Data processing |
Sequence reads were trimmed using Skewer v0.1.125 to remove adaptor and achor sequences, then mapped to canine genome, CanFam3.1, using HISAT2 v2.0.0-beta. The mapped read pairs were quantified using featureCounts v1.5.0, and annotated using the same canine genomic data. Mapping matrics were generated using Picard Tools v1.92. The metrics and variants for assessing read distribution, biotype distribution and mapped transcripts were generated using R v3.4.2. Read counts were all converted to transcripts per milllion (TPM). Genome_build: CanFam3.1 Supplementary_files_format_and_content: tab-delimited text files include TPM values for each sample
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|
|
Submission date |
Jun 02, 2019 |
Last update date |
Sep 21, 2019 |
Contact name |
Ying Wu |
E-mail(s) |
juliawuu@vet.upenn.edu
|
Organization name |
University of Pennsylvania
|
Street address |
3900 Spruce Street
|
City |
Philadelphia |
State/province |
Pennsylvania |
ZIP/Postal code |
19104 |
Country |
USA |
|
|
Platform ID |
GPL26727 |
Series (1) |
GSE132068 |
Phenotypic characterisation of regulatory T cells in dogs reveals signature transcripts conserved in humans and mice |
|
Relations |
BioSample |
SAMN11935536 |
SRA |
SRX5951756 |