Antigen

Antigen Class

DNase-seq

Antigen

DNase-Seq

Cell type

Cell type Class

Kidney

Cell type

Podocytes

MeSH Description

Highly differentiated epithelial cells of the visceral layer of BOWMAN CAPSULE of the KIDNEY. They are composed of a cell body with major CELL SURFACE EXTENSIONS and secondary fingerlike extensions called pedicels. They enwrap the KIDNEY GLOMERULUS capillaries with their cell surface extensions forming a filtration structure. The pedicels of neighboring podocytes interdigitate with each other leaving between them filtration slits that are bridged by an extracellular structure impermeable to large macromolecules called the slit diaphragm, and provide the last barrier to protein loss in the KIDNEY.

Sample

source_name

podocyte

tissue

kidney

cell type

epithelial cell

condition

High glucose (25mM) + NT mimic Rep 2

Sequenced DNA Library

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

library_construction_protocol

Nuclei were isolated and subjected to DNase digestion. DNA was isolated by phenol:chloroform extraction and ethanol precipitation. Gel purified DNA ranging in size from 50-500bp was further purified using Qiagen PCR purification kits DNA libraries were prepared according to standard illumina protocols

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

59610441

Reads aligned (%)

94.8

Duplicates removed (%)

6.5

Number of peaks

1128 (qval < 1E-05)

mm9

Number of total reads

59610441

Reads aligned (%)

94.7

Duplicates removed (%)

6.5

Number of peaks

1218 (qval < 1E-05)