alias: GSM2891284
title: GSM2891284: NY8_input_ChIP_2; Homo sapiens; ChIP-Seq
library_construction_protocol: A confluent 15cm culture plate of cells (NY8 or NY15) was used per immunoprecipitation. Cells were fixed with 1% formaldehyde for 10 minutes. Nuclei were collected and chromatin sheared to 1-10 nucleosomes using the SimpleChIP Plus Enzymatic Chromatin IP kit and protocol (Cell Signaling). HNF1A was immunoprecipitated overnight with goat polyclonal antibody C-19 (Santa Cruz) and 60µL magnetic protein G beads. Beads were washed and immunoprecipitated DNA was reverse crosslinked/purified per the SimpleChIP Plus Enzymatic Chromatin kit protocol. 10 to 500 ng of ChIPped DNA was prepared as a standard Illumina library using IntegenX Prep X (was Wafergen now Takara) reagents on the Apollo 324 instrument, where the fragments are end-repaired, A-tailed, and adapter ligated. Then the samples are PCR amplified and pooled. Final libraries were checked for quality and quantity by TapeStation (Agilent, Santa Clara, CA) and qPCR using Kapa's library quantification kit for Illumina Sequencing platforms (catalog # KK4835) (Kapa Biosystems,Wilmington MA).  They were clustered on the cBot (Illumina) and sequenced on a 50 cycle single end run on a HiSeq 2500 in High Output mode using version 4 reagents according to manufacturer's protocols.
identifiers.namespace: GEO
identifiers.id: GSM2891284