|
Status |
Public on Nov 08, 2013 |
Title |
070b |
Sample type |
SRA |
|
|
Source name |
Whole blood
|
Organism |
Homo sapiens |
Characteristics |
time-point: Post-infection infectious agent: Plasmodium falciparum (Pf) ID: 070 class: Immune age: 9.956164384 gender: Female anemia status at baseline: 0 s. haematobium at baseline: 0 pf infection status: I parasite density: 46.44587 temp max: 37 extraction date: 2/19/13 7:45 sequencing date: 20-Aug-13
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted from whole blood, and depleted of rRNA and globin RNA (ScriptSeqâ„¢ Complete Gold Kit:Illumina). RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Data processing |
Illumina Casava1.8.2 software used for basecalling. Sequenced reads were mapped to GRCh3 using tophat v2.0.8 FPKM values were obtained from the tophat output Genome_build: GRCh37 Supplementary_files_format_and_content: Tab-delimited text files include FPKM values for genes and transcript isoforms, and read counts per gene.
|
|
|
Submission date |
Nov 07, 2013 |
Last update date |
Aug 26, 2019 |
Contact name |
Ravi Sanka |
E-mail(s) |
rsanka@jcvi.org
|
Organization name |
JCVI
|
Street address |
9704 Medical Center Drive
|
City |
Rockville |
State/province |
Maryland |
ZIP/Postal code |
20850 |
Country |
USA |
|
|
Platform ID |
GPL11154 |
Series (1) |
GSE52166 |
Molecular Hallmarks of Naturally Acquired Immunity to Malaria |
|
Relations |
BioSample |
SAMN02399982 |
SRA |
SRX374603 |