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Sample GSM6519854 Query DataSets for GSM6519854
Status Public on Sep 12, 2022
Title Neurons D868D RNA #2
Sample type SRA
 
Source name NPC-derived Neurons
Organism Homo sapiens
Characteristics cell type: NPC-derived Neurons
genotype: SETBP1 D868D
Extracted molecule total RNA
Extraction protocol RNA was extracted using the TRI Reagent isolation system (Sigma-Aldrich) according to the manufacturer’s instructions.
TruSeq
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description WT2
dual index library
Data processing FASTQ reads were quality checked and adaptor trimmed with FastQC (Andrews, S. FastQC A Quality Control tool for High Throughput Sequence Data). High-quality trimmed reads were mapped to the hg38 reference genome with the STAR aligner90 (v2.7.9.a) using the latest GENCODE main annotation file91. Differential gene expression was calculated with DESeq292 (v1.32)
Genome_build: hg38
Supplementary files format and content: STAR gene counts
 
Submission date Aug 29, 2022
Last update date Sep 12, 2022
Contact name Luca Massimino
E-mail(s) admin@lucamassimino.com
Phone +393389039500
Organization name Ospedale San Raffaele
Department Gastroenterology
Street address Via Olgettina, 58
City Milano
State/province MI
ZIP/Postal code 20100
Country Italy
 
Platform ID GPL24676
Series (1)
GSE212252 Balanced SET levels favor the correct enhancer repertoire during cell fate acquisition
Relations
BioSample SAMN30566511
SRA SRX17314007

Supplementary file Size Download File type/resource
GSM6519854_Neurons_D868N_2_ReadsPerGene.out.tab.gz 423.3 Kb (ftp)(http) TAB
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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