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| Status |
Public on Jun 30, 2023 |
| Title |
WT |
| Sample type |
SRA |
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| Source name |
colon tissue
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: colon
disease state: DSS-induced IBD mice model
genotype: wild type
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using using Trizol reagent following the manufacturer's protocol.
The libraries were constructed using TruSeq Stranded mRNA LTSample Prep Kit (Illumina, San Diego, CA, USA) according to the manufacturer's instructions.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Raw reads were processed using Trimmomatic. The reads containing ploy-N and the low quality reads were removed to obtain the clean reads.
The clean reads were mapped to reference genome using hisat 2. FPKM value of each gene was calculated using cufflinks, and the read counts of each gene were obtained by htseq-count.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include FPKM values
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| Submission date |
May 12, 2021 |
| Last update date |
Jun 30, 2023 |
| Contact name |
Juan Juan Zhao |
| E-mail(s) |
jj.z.2008@163.com
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| Phone |
13525098226
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| Organization name |
Zunyi medical University
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| Department |
Immunology
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| Street address |
6 Xuefu west Road
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| City |
Zunyi |
| State/province |
Guizhou |
| ZIP/Postal code |
563000 |
| Country |
China |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE174331 |
Next generation sequencing facilitates quantitative analysis of colonic tissue from miR-7 deficiency and WT mice with IBD mice, and human colonic epithelial cells transfected-with NC/miR-7 inhibitor/miR-7 inhibitor plus Erlotinib following LPS treatment |
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| Relations |
| BioSample |
SAMN19117127 |
| SRA |
SRX10856710 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5292136_WT.txt.gz |
198.9 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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