GSM2527755: H3K18crChIP HCT116 ChIPMS275 2; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K18cr
Cell type
Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma
Attributes by original data submitter
Sample
source_name
H3K18crChIP_HCT116_ChIPMS275
cell line
HCT116
cell type
colon cancer, epithelial
treated with
MS275 (entinostat) 5μM
chip-antibody
H3K18cr antibody PTM Biolabs (PTM-517)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA-Seq_colonepithelium: RNA was extracted using the RNeasy Plus Mini Kit (Qiagen), following the manufacturer’s instructions. Extracted RNA was quantified with Nanodrop and the quality assessed on a Bioanalyzer (Agilent). RNA-Seq_colonepithelium: Library preparation was performed from 500 ng of RNA using the NEB Next® Ultra™ Directional RNA Library Prep Kit for Illumina® and the NEBNext® Poly(A) mRNA magnetic isolation module. Illumina Tru-Seq adaptors were used and library amplification was performed with the KAPA PCR Amplification kit (KAPA, Cat. KK2501) using 14 cycles. RNA-Seq_HCT116: RNA was extracted using the RNeasy Plus Mini Kit (Qiagen), following the manufacturer’s instructions. Extracted RNA was quantified with Nanodrop and the quality assessed on a Bioanalyzer (Agilent). RNA-Seq_HCT116: Library preparation was performed from 500 ng of RNA using the NEB Next® Ultra™ Directional RNA Library Prep Kit for Illumina® and the NEBNext® Poly(A) mRNA magnetic isolation module. Illumina Tru-Seq adaptors were used and library amplification was performed with the KAPA PCR Amplification kit (KAPA, Cat. KK2501) using 14 cycles. ChIP-Seq_HCT116: Cells where trypsinized and fixed in 1 % formaldehyde for 10 minutes. After quenching with 0.125 M glycine cells were washed with PBS and processed for ChIP ChIP-Seq_HCT116: Library preparation was performed from 0.8 ng of purified DNA using the NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® with the following modifications: Illumina Tru-Seq adaptors were used and library amplification was performed with the KAPA PCR Amplification kit (KAPA, Cat. KK2501) using 15 cycles. ChIP-Seq_colonepithelium: Cells where trypsinized and fixed in 1 % formaldehyde for 10 minutes. After quenching with 0.125 M glycine cells were washed with PBS and processed for ChIP ChIP-Seq_colonepithelium: Library preparation was performed from 5 ng of purified DNA using the NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® with the following modifications: Illumina Tru-Seq adaptors were used and library amplification was performed with the KAPA PCR Amplification kit (KAPA, Cat. KK2501) using 11 cycles.