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| Status |
Public on Feb 19, 2024 |
| Title |
Con1 |
| Sample type |
SRA |
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| Source name |
vBNST
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| Organism |
Mus musculus |
| Characteristics |
tissue: vBNST
group: Con
antibody: Invitrogen Cat# 44-923G;
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was eluted from all samples using an RNeasy Mini kit (Qiagen, Venlo, The Netherlands).2 μg of total RNA was used for the construction of sequencing libraries.
2 μg total RNAs were used for stranded RNA sequencing library preparation using Ribo-off rRNA Depletion Kit (Human/Mouse/Rat) (Catalog NO. MRZG12324, Illumina) and KC-DigitalTM Stranded mRNA Library Prep Kit for Illumina® (Catalog NO. DR08502, Wuhan Seqhealth Co., Ltd. China) following the manufacturer’s instruction.
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| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
Raw sequencing data was first filtered by Trimmomatic (version 0.36), low-quality reads were discarded and the reads contaminated with adaptor sequences were trimmed.
In brief, clean reads were first clustered according to the UMI sequences, in which reads with the same UMI sequence were grouped into the same cluster.
Deduplicated Reads were mapped to the reference genome of Mus_musculus from GRCm38 using STRA software (version 2.5.3a) with default parameters.
Reads mapped to the exon regions of each gene were counted by featureCounts (Subread-1.5.1; Bioconductor) and then RPKM was calculated.
Assembly: mm10
Supplementary files format and content: All_samples_rpkm.xls，All samples rpkm
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| Submission date |
Feb 13, 2024 |
| Last update date |
Feb 19, 2024 |
| Contact name |
Shuaiwen Teng |
| E-mail(s) |
Tengsw-neuron@hotmail.com
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| Organization name |
Shandoong University
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| Street address |
wenhuaxi road 44
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| City |
jinan |
| ZIP/Postal code |
250012 |
| Country |
China |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE255670 |
Coordinated excitatory and inhibitory circuits governing unpredictable threat induced anxiety |
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| Relations |
| BioSample |
SAMN39932758 |
| SRA |
SRX23612615 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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