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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
2
RRBS
2
STARR-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
Transcription
28
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
54
August, 2017
53
November, 2018
51
May, 2020
26
August, 2021
20
May, 2022
5
October, 2019
3
July, 2019
2
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
Available data
518
bam
460
bigWig
460
fastq
440
bed narrowPeak
358
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
2
tsv
1
bed bed3
1
hdf5
1
vcf
Organism
597
Homo sapiens
Biosample type
387
cell line
187
tissue
15
in vitro differentiated cells
8
primary cell
Organ
597
liver
424
pancreas
267
epithelium
260
brain
209
kidney
186
connective tissue
181
heart
168
vasculature
163
blood vessel
114
limb
89
adipose tissue
83
artery
78
musculature of body
69
blood
69
bodily fluid
42
eye
38
nerve
25
spleen
22
vein
19
embryo
18
ureter
13
bone element
12
skeleton
11
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
Project
597
AMP
Genome assembly (visualization)
462
hg19
368
GRCh38
Lab
555
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
27
inconsistent control
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_slims!
Transcription
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
597 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
RRBS
STARR-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
2
1
tissue
liver
145
20
2
3
1
1
1
right lobe of liver
10
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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