|
| Status |
Public on Aug 23, 2023 |
| Title |
41107_1_22_EV_48 |
| Sample type |
SRA |
| |
|
| Source name |
Blood
|
| Organism |
Plasmodium falciparum |
| Characteristics |
tissue: Blood
cell line: KE04
cell type: Asexual Plasmodium falciparum isolates
genotype: WT
treatment: EV_48
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Isolate II RNA kit (Bioline) following Manufacturer’s instructions
RNA preparation was performed using
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Fourier_transformed_nTPM.xlsx
|
| Data processing |
Transcript quantification was done using Kallisto and imported into R using tximport
R/bioconductor was used to normalize read counts for sequencing depth, gene length and unwanted variation
normalized counts were smoothed using loess and Fourier transformed
Assembly: Plasmodium falciparum 3D7
Supplementary files format and content: supplementary file containing Fourier transformed normalized TPM
|
| |
|
| Submission date |
Aug 21, 2023 |
| Last update date |
Sep 01, 2023 |
| Contact name |
Alena Pance |
| Organization name |
Wellcome Sanger Institute
|
| Lab |
Rayner Lab
|
| Street address |
Hinxton
|
| City |
Cambridge |
| State/province |
Not US or Canada |
| ZIP/Postal code |
CB10 1SA |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL27825 |
| Series (1) |
| GSE241277 |
RNAseq analysis of Plasmodium falciparum extracellular vesicles |
|
| Relations |
| BioSample |
SAMN37104808 |
| SRA |
SRX21445973 |
