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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
206
DNase-seq
79
ChIP-seq
23
Hi-C
12
ATAC-seq
Assay category
218
DNA accessibility
79
DNA binding
23
3D chromatin structure
Target of assay
49
transcription factor
30
histone
30
histone modification
16
broad histone mark
14
narrow histone mark
9
RNA binding protein
5
chromatin remodeller
1
other context
1
other post-translational modification
Date released
187
June, 2019
64
November, 2017
15
August, 2017
13
October, 2019
10
February, 2023
10
March, 2020
9
November, 2018
3
October, 2022
2
August, 2021
2
February, 2021
2
November, 2019
1
March, 2019
1
March, 2023
1
November, 2020
Available data
3392
bam
3169
bigWig
1817
bed narrowPeak
1600
tsv
1358
fastq
1042
bigBed narrowPeak
398
tagAlign
322
bed broadPeak
285
bigBed broadPeak
273
bed bed3+
161
txt
153
zippedFastqFolder
64
xls
36
bed bedMethyl
36
bigBed bedMethyl
23
bedpe bed3+
23
hic
12
bed bed3
8
csv
7
bed bedgraph
5
hdf5
4
tar
3
cool
2
ibed
1
bedpe
1
tagAlign bed3+
1
vcf
Organism
320
Homo sapiens
Biosample type
192
tissue
62
cell line
56
primary cell
10
in vitro differentiated cells
Organ
79
kidney
66
liver
39
brain
36
limb
35
musculature of body
33
heart
28
epithelium
20
vasculature
18
ureter
16
blood vessel
15
connective tissue
14
pancreas
6
vein
4
artery
4
bone element
4
eye
4
skeleton
2
adipose tissue
2
nerve
1
spleen
Project
316
AMP
3
HPAP
1
ITG
Genome assembly (visualization)
296
hg19
270
GRCh38
Lab
313
AMP-T2D consortium
3
Klaus Kaestner, Upenn
2
Bing Ren, UCSD
1
ITG
1
Katalin Susztak, Upenn
Audit category:
9
inconsistent ontology term
4
audit script error
1
inconsistent replicate
Audit category:
13
inconsistent control read length
1
inconsistent assembly
BIOSAMPLE
ASSAY
320 results
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DNase-seq
ChIP-seq
Hi-C
ATAC-seq
tissue
heart
18
1
muscle of arm
17
brain
14
1
kidney
13
1
muscle of leg
13
+ See 46 more…
cell line
HepG2
58
1
1
EndoC_BH1
1
Panc1
1
primary cell
skeletal muscle myoblast
1
13
endothelial cell of umbilical vein
2
2
2
astrocyte of the cerebellum
1
2
brain microvascular endothelial cell
1
2
cardiac fibroblast
3
+ See 22 more…
in vitro differentiated cells
chondrocyte
5
cardiomyocytes (cardiac muscle cell)
2
adipocyte
1
cardiac precursors (cardiac muscle cell)
1
lymphocyte of B lineage (iPSC)
1
See all biosamples
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