|
| Status |
Public on Mar 31, 2019 |
| Title |
Healthy PBMC (Validation) (BENCH_CD14_1) |
| Sample type |
SRA |
| |
|
| Source name |
Healthy PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Healthy
cell type: PBMC
cell subset: CD14 monocytes
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were resuspended in TCL buffer, supplemented with 1 mg/mL proteinase K, and processed through the Smart-seq2 protocol (on a microfluidic device)
Libraries were constructed using the Nextera XT (Illumina) library preparation kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
Technical Validation - RNA-seq.matrix
|
| Data processing |
Bcls were demultiplexed using Illumina bcl2fastq (v2.20.0.422)
Fastqs were aligned to hg19 using STAR
Gene expression matrices were generated using Bowtie2
Genome_build: hg19
Supplementary_files_format_and_content: Matrices are provided as samples (columns) vs. genes (rows)
|
| |
|
| Submission date |
Sep 28, 2018 |
| Last update date |
Mar 31, 2019 |
| Contact name |
Paul Blainey |
| E-mail(s) |
pblainey@broadinstitute.org
|
| Organization name |
Broad Institute
|
| Street address |
415 Main St
|
| City |
Cambridge |
| State/province |
Massachusetts |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL21697 |
| Series (1) |
| GSE120442 |
Multiplexed enrichment and genomic profiling of peripheral blood cells reveal subset-specific immune signatures |
|
| Relations |
| BioSample |
SAMN10142569 |
