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Sample GSM4735642 Query DataSets for GSM4735642
Status Public on Aug 22, 2020
Title 0008V4D3
Sample type SRA
 
Source name Whole blood RNA
Organism Homo sapiens
Characteristics disease state: post kala azar dermal leishmaniasis (PKDL)
tissue: whole blood
visit day: D3
treatment: 1x10^10 viral particles
age_group: adults
Extracted molecule total RNA
Extraction protocol PAXgene Blood RNA kit
Ion AmpliSeqâ„¢ Transcriptome Human Gene Expression Kit,, which employs an highly multiplexed PCR to amplify more than 20,000 human genes. Amplified products from each sample are then barcoded and sequenced on a Ion Proton machine. Amplified products from each sample are then barcoded and sequenced on a Ion Proton machine.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Ion Torrent Proton
 
Data processing Raw data are processed on a Thermo Fisher server, basecalled and then reads are aligned to the fragments corresponding to the amplified PCR products. Aligned reads are then counted with samtools (For additional details: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4681149/)
Genome_build: GRCh37
Supplementary_files_format_and_content: Counts_Leish2a_20191217.csv contains read counts for all the samples
 
Submission date Aug 21, 2020
Last update date Aug 22, 2020
Contact name Francesco Santoro
E-mail(s) santorof@unisi.it
Organization name University of Siena
Department Department of Medical Biotechnologies
Lab Laboratory of Molecular Microbiology and Biotechnology
Street address Viale Bracci, 16, V lotto, I piano
City Siena
State/province SI
ZIP/Postal code 53100
Country Italy
 
Platform ID GPL17303
Series (1)
GSE156645 A chimpanzee adenovirus-vectored single dose therapeutic vaccine for post kala azar dermal leishmaniasis
Relations
BioSample SAMN15877981
SRA SRX8984074

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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