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Sample GSM1700951 Query DataSets for GSM1700951
Status Public on May 23, 2016
Title HCT116 was treated by TSA
Sample type SRA
 
Source name HCT116, 1 μM TSA
Organism Homo sapiens
Characteristics cell line: HCT116
Growth protocol A549 and MHCC97H cells were cultured in the complete DMEM medium and epigenetically manipulation (1 μM TSA, 50 μM GSK126 and 100μM S2101 respectively); HCT116 cells were maintained in complete RPMI 1640 medium and epigenetically manipulation (1 μM TSA, 50 μM GSK126 and 100μM S2101 respectively). We detected and analyzed the miss protein with transcriptome and proteome.
Extracted molecule polyA RNA
Extraction protocol Total RNA was extracted using Trizol method.
The polyA+mRNA was selected by NEBNext® Poly(A) mRNAMagnetic Isolation Module. We used NEBNext® Ultra™ RNA Library Prep Kit for Illumina to construct sequencing libraries.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Adapter sequences were trimmed from the reads.
High quality reads were mapped to human mRNA reference sequence (RefSeq) for GRCh38/hg38 (downloaded from UCSC genome browser on May 21st, 2014) using FANSe2 mapping algorithm with the options –L80 –S10 –I0 –E5 –B1.
Genome_build: Human mRNA reference sequence (RefSeq) for GRCh38/hg38 (downloaded from UCSC genome browser on May 21st, 2014)
 
Submission date Jun 01, 2015
Last update date May 15, 2019
Contact name Gong Zhang
E-mail(s) zhanggong@jnu.edu.cn
Organization name Jinan University
Department Institute of Life and Health Engineering
Lab Translatomics Lab
Street address Huang-Pu Avenue West 601
City Guangzhou
ZIP/Postal code 510632
Country China
 
Platform ID GPL18573
Series (1)
GSE69420 Finding missing proteins from epigenetically manipulated human cells
Relations
BioSample SAMN03754100
SRA SRX1044757

Supplementary file Size Download File type/resource
GSM1700951_HCT116_TSA.txt.gz 474.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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