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| Status |
Public on Jan 16, 2024 |
| Title |
GD1125_10 _mg_ IL12ns_female_t7 |
| Sample type |
SRA |
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| Source name |
Blood
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| Organism |
Mus musculus |
| Characteristics |
tissue: Blood
cell type: Peripheral Blood Mononuclear Cells
genotype: BALB/c
treatment: 10 mg IL12ns
Sex: female
timepoint: t7
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA Total RNA was isolated from PBMCs collected at all sampling timepoints following preparation into single cell suspension using theQiagen RNeasy Plus Mini Kit (74136)
RNA-seq libraries were prepared usingNew England Biolab’s NEBNext Poly(A) mRNA Magnetic Isolation Module (E7490L), Globin & rRNA Depletion Kit (E7750X), Ultra II Directional RNA Library Prep Kitfor Illumina (E7760L), andMultiplex Oligosfor Illumina (E6440L)according to the manufacturer’s instructions. Libraries were pooled at equimolar concentrations and sequenced using Illumina’s NextSeq 2000 on one P2-100 kit (2004681)and four P3-100 kits (20040559).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
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| Data processing |
Reads were aligned to mouse genome (mm10) with subread-align version 2.0.1 (PMID: 23558742)
Read counts were calculated with the featureCounts function from Rsubread version 2.0.1 (PMID: 24227677) against RefSeq gene annotation
Gene expression level from RNA-Seq is measured by rpkm (PMID: 18516045) with an in-house script.
Assembly: mm10
Supplementary files format and content: Txt file, from left to right represent entrz ID, gene symbol, and gene expression values in log2(RPKM+1) for each samples.
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| Submission date |
Aug 30, 2023 |
| Last update date |
Jan 16, 2024 |
| Contact name |
Gangqing Hu |
| E-mail(s) |
michael.hu@hsc.wvu.edu
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| Organization name |
West Virginia University
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| Department |
MicroBiology, Immunology, and Cell Biology
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| Lab |
2072A, HSC North, Floor 2
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| Street address |
64 Medical Center Drive
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| City |
Morgantown |
| State/province |
West Virginia |
| ZIP/Postal code |
26506-9177 |
| Country |
USA |
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| Platform ID |
GPL30172 |
| Series (1) |
| GSE241939 |
Safe and effective immunostimulatory therapy through vector-controlled cytokine delivery |
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| Relations |
| BioSample |
SAMN37199536 |
| SRA |
SRX21524619 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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