NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4498355 Query DataSets for GSM4498355
Status Public on Oct 07, 2020
Title TIB-CON_S14_L002
Sample type SRA
 
Source name Owen O’Connor (Columbia University, NY)
Organism Homo sapiens
Characteristics cell line: TIB153
cell type: human T-ALL line
treatment: control
Treatment protocol cells were treated with β-Catenin/Tcf Inhibitor II, PKF118-310 at the indicated time/concentrations in the manuscript
Growth protocol CUTTL1 and TIB153 cells were maintained in RPMI with 10% FBS
Extracted molecule total RNA
Extraction protocol RNA was extract with Trizol, and purified via Qiagen RNeasy column
Illumina stranded mRNA library prep kit was used
mRNA was enriched by using polyT beads, heat fragmentated, then reverse transcribled to cDNA. Illumina adapters were ligated to the cDNA and PCR was performed to get the final library.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description not transfected
control
TIB-CON
Data processing fastq files was generated at the basespace cloud
fastq files was aligned to hg38 using HISAT2 to generate bam files
Counts aligns reads per gene with HTSeq
Differentially expressed gene list was obtained by using DEseq2
Genome_build: hg38
Supplementary_files_format_and_content: HTSeq-normalized read counts; DEseq2-differentially expressed genes
 
Submission date Apr 25, 2020
Last update date Oct 08, 2020
Contact name yinfei tan
E-mail(s) Yinfei.Tan@fccc.edu
Phone 2157282898
Organization name Fox Chase Cancer Center
Department Genomic Core
Lab NGS-research
Street address 333 cottman ave
City Philadelphia
State/province PA
ZIP/Postal code 19111
Country USA
 
Platform ID GPL16791
Series (2)
GSE149345 Wnt Signaling Mediates Oncogenic Synergy Between Akt and Dlx5 in T-Cell Lymphomagenesis by Enhancing Cholesterol Synthesis [human PKF RNA-seq]
GSE149350 Wnt Signaling Mediates Oncogenic Synergy Between Akt and Dlx5 in T-Cell Lymphomagenesis by Enhancing Cholesterol Synthesis
Relations
BioSample SAMN14730887
SRA SRX8175054

Supplementary file Size Download File type/resource
GSM4498355_TIB-CON_S14_L002_R1_001.tsv.gz 898.8 Kb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.