|
| Status |
Public on May 16, 2022 |
| Title |
hMonocyte_Day6_AMTB_Donor4 |
| Sample type |
SRA |
| |
|
| Source name |
Peripheral blood monocyte-derived macrophages
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: 10μM AMTB
differentiation conditions: 100ng/ml M-CSF for 6 days
|
| Treatment protocol |
Differentiation into Mo-M was done in the presence of 10μM AMTB or 0.01% DMSO (vehicle control)
|
| Growth protocol |
CD14+ monocytes were isolated from the peripheral blood of healthy volunteers and differentiated into macrophages (Mo-M) in the presence of 100ng/ml M-CSF
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was isolated from CD14+ monocyte, Mo-M-DMSO and Mo-M-AMTB samples using an RNAeasy Mini kit PLUS (Qiagen)
RNA libraries were prepared for sequencing using NEBNext Ultra II Directional RNA Library Prep Kit (NEBL)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Transcript counts were then generated using Salmon against the GRCh38 transcriptome (Ensembl release 92).
Tximport was used to collapse multiple transcripts per gene into a single expression estimate for each protein-coding gene.
Differential expression analysis was performed using DESeq2 with default settings.
Genome_build: GRCh38
Supplementary_files_format_and_content: DESeq2 results are provided (at gene level) in addition to individual transript abundance files from salmon.
|
| |
|
| Submission date |
May 17, 2019 |
| Last update date |
May 17, 2022 |
| Contact name |
Hamish W King |
| Organization name |
Queen Mary University of London
|
| Department |
Blizard Institute
|
| Street address |
4 Newark St
|
| City |
London |
| ZIP/Postal code |
E1 2AT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE131415 |
Constitutive activity of the cation channel TRPM8 regulates the function and differentiation of human monocytes |
|
| Relations |
| BioSample |
SAMN11671046 |
| SRA |
SRX5857330 |
