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Sample GSM5889126 Query DataSets for GSM5889126
Status Public on Dec 31, 2022
Title Brain, Plxnd1-WT, 4
Sample type SRA
 
Source name Brain, Plxnd1-WT
Organism Mus musculus
Characteristics developmental stage: neonatal
genotype: wild type
tissue: brain (striatum)
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.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
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)
 
Submission date Feb 11, 2022
Last update date Dec 31, 2022
Contact name Jung-Woong Kim
E-mail(s) jungkim@cau.ac.kr
Organization name Chung-Ang University
Department Life Science
Lab Genome Dynamics Lab
Street address 84 Heuksuk-ro Dongjak-ku
City Seoul
ZIP/Postal code 06974
Country South Korea
 
Platform ID GPL17021
Series (1)
GSE196558 Axon guidance signal ensures neurite growth pace while sensitizing repulsive cues through induction of a dual function facilitator
Relations
BioSample SAMN25860498
SRA SRX14138452

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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