Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMC1A

Cell type

Cell type Class
Blood
Cell type
Macrophages
MeSH Description
The relatively long-lived phagocytic cell of mammalian tissues that are derived from blood MONOCYTES. Main types are PERITONEAL MACROPHAGES; ALVEOLAR MACROPHAGES; HISTIOCYTES; KUPFFER CELLS of the liver; and OSTEOCLASTS. They may further differentiate within chronic inflammatory lesions to EPITHELIOID CELLS or may fuse to form FOREIGN BODY GIANT CELLS or LANGHANS GIANT CELLS. (from The Dictionary of Cell Biology, Lackie and Dow, 3rd ed.)

Attributes by original data submitter

Sample

source_name
Primary human monocyte-derived macrophages, untreated, SMC1 ChIP
disease state
healthy
tissue
peripheral blood
cell type
primary human monocyte-derived macrophages
treatment
none
chip antibody
anti-SMC1 (Bethyl Laboratories A300-055A)

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 prepared according to Illumina's instructions accompanying the TruSeq ChIP Library Preparation Kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
189488524
Reads aligned (%)
9.0
Duplicates removed (%)
40.5
Number of peaks
48845 (qval < 1E-05)

hg38

Number of total reads
189488524
Reads aligned (%)
9.1
Duplicates removed (%)
40.0
Number of peaks
46105 (qval < 1E-05)

Base call quality data from DBCLS SRA