NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4134291 Query DataSets for GSM4134291
Status Public on Oct 22, 2019
Title Limbal-TERT-wt-34-12594
Sample type SRA
 
Source name Limbal-TERT-wt
Organism Homo sapiens
Characteristics cell type: limbal epithelial cells
genotype: WT
Extracted molecule total RNA
Extraction protocol Lysates were purified using Nuleospin RNA (Macherey-Nagel, cat# 740955.250)
Libraries were prepared according to NuGEN’s instructions accompanying the NuGEN Ovation RNA-seq kit (NuGENcat #7102-32). RNA-seq libraries were amplified using 10 cycles.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing Sequencing reads were aligned to human genome assembly hg19 (NCBI version 37) using STAR 2.5.0 with default options
Read counts representing gene expression levels were calculated by using STAR 2.5.0 with default options.
Genes with the mean of DESeq2-normalized counts (“baseMean”) > 10 are considered to be expressed, and genes with non-adjusted P value < 0.001 are consider to be Differential expressed genes (DEG).
Genome_build: hg19
Supplementary_files_format_and_content: Counts and DEGs
 
Submission date Oct 21, 2019
Last update date Jun 14, 2022
Contact name Jo Huiqing Zhou
E-mail(s) jo.zhou@radboudumc.nl
Organization name Radboud University
Street address Geert Grooteplein 26/28
City Nijmegen
ZIP/Postal code 6525GA
Country Netherlands
 
Platform ID GPL16791
Series (1)
GSE139221 Modeling of aniridia-related keratopathy by CRISPR/Cas9 genome editing of human limbal epithelial cells and rescue by recombinant PAX6 protein
Relations
BioSample SAMN13073654
SRA SRX7032359

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap