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Sample GSM3597695 Query DataSets for GSM3597695
Status Public on Jun 15, 2019
Title RNA-seq_human primary fetal astrocytes batch 2_rep2
Sample type SRA
 
Source name RNA-seq_human primary fetal astrocytes batch 2
Organism Homo sapiens
Characteristics cell type: human primary fetal astrocytes batch 2
Growth protocol Human primary fetal astrocytes were cultured according to the ScienCell protocol (catalog #1801).
Extracted molecule total RNA
Extraction protocol RNA was extracted using the RNeasy Mini Kit (QIAGEN #74104) according to its protocol.
The TruSeq Stranded mRNA protocol from Illumina was followed for library construction (catalog #RS-122-2101).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Data processing All reads were quality trimmed using TrimGalore 0.4.5 prior to further processing. For libraries having undergone paired-end sequencing, only the first read was used.
Reads were mapped using STAR and GENCODE V19 transcripts were quantified with RSEM using the standard ENCODE parameters.
Genome_build: hg19/GRCh37
Supplementary_files_format_and_content: tab-delimited text files including gene expression estimates from RSEM and signal tracks in bigwig format
 
Submission date Feb 11, 2019
Last update date Jun 15, 2019
Contact name Yin Shen
E-mail(s) Yin.Shen@ucsf.edu
Phone 4155023403
Organization name UCSF
Department Department of Neurology
Lab Shen Lab
Street address 513 Parnassus Ave
City SAN FRANCISCO
State/province CALIFORNIA
ZIP/Postal code 94143-0410
Country USA
 
Platform ID GPL20301
Series (2)
GSE113482 Mapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes [RNA-Seq]
GSE113483 Mapping cis-regulatory chromatin contacts in neural cells links neuropsychiatric disorder risk variants to target genes
Relations
BioSample SAMN10910639
SRA SRX5360063

Supplementary file Size Download File type/resource
GSM3597695_LMA025.genes.results.txt.gz 1.4 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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