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Sample GSM3851670 Query DataSets for GSM3851670
Status Public on Oct 01, 2019
Title C2_REST_sh-PBmPA-Day24_3
Sample type SRA
 
Source name RESTsh_PB_miRNA_PA
Organism Homo sapiens
Characteristics tissue: induced human neurons from fibroblasts
treatment: Treated with miRNA
Extracted molecule total RNA
Extraction protocol RNA was extracted using miRNAeasy mini kit (Qiagen) with DNase treatment
cDNA libraries were prepared using the KAPA Stranded mRNA-Seq Kit from KAPAbiosystems.
Single-end 50 base-pair RNA sequencing sample reads were generated in one batch. Sequencing was performed using Illumina HiSeq3000 sequencer.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description C2_REST_sh-PBmPA-Day24_3_S16
Data processing Raw basecalls were converted to Fastq using bcl2fastq program provided by Illumina.
Reads were aligned to genome using STAR mapper.
mRNA expression was quantified using the subread package FeatureCounts quantifying to NCBI annotation (GRCh38).
Abundance estiamtes were combined using tximport and normalized using edgeR/limma
Genome_build: GRCh38
Supplementary_files_format_and_content: TSV of raw and normalised counts for all genes
 
Submission date Jun 04, 2019
Last update date Oct 01, 2019
Contact name Yogita Sharma
E-mail(s) yogita.sharma@med.lu.se
Organization name Lund University
Street address Solvegatan 17
City Lund
ZIP/Postal code 22184
Country Sweden
 
Platform ID GPL21290
Series (1)
GSE132154 Dual modulation of neuron specific microRNAs and the REST complex promotes functional maturation of induced human adult neurons
Relations
BioSample SAMN11958011
SRA SRX5970478

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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