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| Status |
Public on Dec 31, 2022 |
| Title |
Brain, Plxnd1-WT, 1 |
| Sample type |
SRA |
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| Source name |
Brain, Plxnd1-WT
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| Organism |
Mus musculus |
| Characteristics |
developmental stage: neonatal
genotype: wild type
tissue: brain (striatum)
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted using Trizol reagent. Illumina Truseq RNA kit (cat# 20040534) includes the specific beads to capture poly-A tailed mRNA.
RNA libraries were prepared for sequencing using standard Truseq RNA Illumina protocols.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
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| Data processing |
Illumina Casava software used for basecalling
Sequenced read were trimmed for adaptor sequence, and masked for low-quality sequence using TrimGalore
Alignment to mm10 whole genome with HISAT2 and transcript assembly with StringTie
Genome_build: mm10
Supplementary_files_format_and_content: txt files include raw counts, normalized counts(FPKM)
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| Submission date |
Feb 11, 2022 |
| Last update date |
Dec 31, 2022 |
| Contact name |
Jung-Woong Kim |
| E-mail(s) |
jungkim@cau.ac.kr
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| Organization name |
Chung-Ang University
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| Department |
Life Science
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| Lab |
Genome Dynamics Lab
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| Street address |
84 Heuksuk-ro Dongjak-ku
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| City |
Seoul |
| ZIP/Postal code |
06974 |
| Country |
South Korea |
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| Platform ID |
GPL17021 |
| Series (1) |
| GSE196558 |
Axon guidance signal ensures neurite growth pace while sensitizing repulsive cues through induction of a dual function facilitator |
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| Relations |
| BioSample |
SAMN25860501 |
| SRA |
SRX14138449 |
| 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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