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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
192
ChIP-seq
84
RNA microarray
34
total RNA-seq
24
ATAC-seq
4
Hi-C
4
WGBS
3
pCHi-C
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
192
DNA binding
35
Transcription
25
DNA accessibility
6
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
107
control
52
transcription factor
33
histone
33
histone modification
19
narrow histone mark
14
broad histone mark
7
RNA binding protein
2
chromatin remodeller
1
recombinant protein
Date released
98
November, 2017
86
February, 2021
40
May, 2022
35
August, 2017
32
August, 2021
32
May, 2020
13
December, 2017
8
February, 2023
3
July, 2019
2
March, 2020
1
December, 2018
1
February, 2020
1
November, 2018
Available data
150
bam
122
fastq
94
bigWig
88
txt
74
bed narrowPeak
55
tagAlign
32
bigBed narrowPeak
14
bed broadPeak
14
bigBed broadPeak
12
tsv
4
bed bed3
3
tar
2
bed bed3+
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
csv
1
hdf5
1
vcf
Organism
352
Homo sapiens
Biosample type
215
tissue
133
cell line
3
primary cell
1
in vitro differentiated cells
Organ
260
liver
141
pancreas
127
heart
117
connective tissue
102
kidney
92
bone element
88
epithelium
69
brain
67
adipose tissue
55
eye
45
vasculature
43
blood vessel
43
musculature of body
26
limb
13
artery
12
nerve
10
vein
9
spleen
8
embryo
8
skeleton
7
blood
7
bodily fluid
5
gonad
5
ovary
2
intestine
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
352
AMP
Genome assembly (visualization)
695
hg19
GRCh38
Lab
281
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
84
inconsistent ontology term
Audit category:
8
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
assembly!
GRCh38
organ_slims!
bone marrow
BIOSAMPLE
ASSAY
352 results
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ChIP-seq
RNA microarray
total RNA-seq
ATAC-seq
Hi-C
WGBS
pCHi-C
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
70
20
20
1
3
1
1
1
bone element
84
right lobe of liver
3
1
1
1
acetabular part of hip bone
1
1
ilium
1
1
+ See 2 more…
cell line
HepG2
117
9
2
2
2
1
primary cell
hepatocyte
1
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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