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| Status |
Public on Jul 04, 2024 |
| Title |
ADV 3 |
| Sample type |
SRA |
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| Source name |
RAW264.7
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| Organism |
Mus musculus |
| Characteristics |
cell line: RAW264.7
treatment: ADV
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using a TRIzol total RNA extraction kit (TIANGEN,Cat.No.DP424), which yielded > 2 μg of total RNA per sample.
Whole mRNAseq libraries were generated by ApexBio Technology LLC. (Shanghai China) using Hieff NGS® Ultima Dual-mode mRNA Library Prep Kit ® (12310ES, China) following manufacturer’s recommendations. Amplify cDNA for the synthesis of the second chain of cDNA. Purify cDNA products by AMPure XP system (Beckman Coulter, Beverly, USA).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
ADV-3_fpkm
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| Data processing |
Raw paired-end fastq reads were filtered by TrimGaloreto discard the adapters and low quality bases via calling the Cutadapt tool
The clean reads obtained were then aligned to the mm10/hg19 mouse/human genome using HISAT2, followed by reference genome-guided transcriptome assembly and gene expression quantification using StringTie
Differentially expressed genes (DEGs) were identified by DEseq2(for sample with replications)or edgeR (for sample with no replication) with a cut-off value of log2|fold-change|>1 and p-value <0.05.
Assembly: mm10
Supplementary files format and content: processes data files includes FPKM for each sample
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| Submission date |
Jul 01, 2024 |
| Last update date |
Jul 04, 2024 |
| Contact name |
kua liu |
| E-mail(s) |
liukua2917@mails.jlu.edu.cn
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| Phone |
18844116408
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| Organization name |
Nanjing University
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| Street address |
22 Hankou Road
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| City |
Nanjing |
| State/province |
Jiangsu |
| ZIP/Postal code |
210093 |
| Country |
China |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE271202 |
Thymosin α1 reverses oncolytic adenovirus-induced M2 polarization of macrophages to improve antitumor immunity and therapeutic efficacy |
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| Relations |
| BioSample |
SAMN42206406 |
| SRA |
SRX25168989 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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