Antigen

Antigen Class

TFs and others

Antigen

ZIC5

Cell type

Cell type Class

Digestive tract

Cell type

HCT 116

Primary Tissue

Colon

Tissue Diagnosis

Carcinoma

Sample

source_name

HCT116

cell type

colorectal cancer cells

passages

Low passages (6-10)

strain

human

chip antibody

ZIC5FL290 (homemade)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

RNA was extracted using QIAGEN RNeasy kit. DNA after ChIP protocol was isolated using QIAGEN PCR purification kit. ChIP-sequencing libraries were prepared using the KAPA HTP Library Preparation Kit complemented with NEXTflex DNA Barcodes from Bioo Scientific. 10 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using 13 cycles on the thermocycler. Post amplification libraries were size selected at 250- 450bp in length using Agencourt AMPure XP beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity DNA Kit. RNA-sequencing libraries were prepared using the Illumina TruSeq Stranded Total RNA Preparation Kit with Ribo-Depletion. Input RNA quality was validated using the Agilent RNA 6000 Nano Kit. 200ng-1 µg of total RNA was used as starting material. Libraries were validated using the Agilent DNA 1000 Kit

Sequencing Platform

instrument_model

NextSeq 500

hg19

Number of total reads

30398301

Reads aligned (%)

93.9

Duplicates removed (%)

6.9

Number of peaks

1583 (qval < 1E-05)

hg38

Number of total reads

30398301

Reads aligned (%)

94.8

Duplicates removed (%)

5.8

Number of peaks

1423 (qval < 1E-05)