|
| Status |
Public on Nov 08, 2013 |
| Title |
070a |
| Sample type |
SRA |
| |
|
| Source name |
Whole blood
|
| Organism |
Homo sapiens |
| Characteristics |
time-point: Pre-infection
infectious agent: n/a
ID: 070
class: Immune
age: 9.890410959
gender: Female
anemia status at baseline: 0
s. haematobium at baseline: 0
pf infection status: U
parasite density: 0
temp max: 37.3
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 (ScriptSeq™ 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 |
SAMN02400012 |
| SRA |
SRX374602 |
