Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Blood

Cell type

Monocytes-CD14+

Tissue

monocytes

Lineage

mesoderm

Description

Monocytes-CD14+ are CD14-positive cells from human leukapheresis production, from donor RO 01746 (draw 1 ID is RO 01746, draw 2 ID is RO 01826), newly promoted to tier 2: not in 2011 analysis

Sample

source_name

Umbilical cord blood purified CD14+ monocytes

tissue

Umbilical cord blood purified CD14+ monocytes

age

Extremely preterm neonate (under 30 weeks gestation)

exposure

Chorioamnionitis

treatment

None

replicate

2

chip antibody

None

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were constructed according to the published protocol: Bermick JR, Lambrecht NJ, denDekker AD, Kunkel SL, Lukacs NW, Hogaboam CM, Schaller MA. Neonatal monocytes exhibit a unique histone modification landscape. Clinical Epigenetics, 2016, 8:99. After library consruction, samples were pooled in equimolar concentrations and were sequenced on an Illumina HiSeq machine according to the manufacturer's guidelines.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

54164047

Reads aligned (%)

17.8

Duplicates removed (%)

13.2

Number of peaks

665 (qval < 1E-05)

hg19

Number of total reads

54164047

Reads aligned (%)

17.6

Duplicates removed (%)

14.5

Number of peaks

724 (qval < 1E-05)