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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
529
ChIP-seq
185
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
3
Hi-C
pCHi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
529
DNA binding
186
Transcription
29
DNA accessibility
5
DNA methylation
3
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
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
193
May, 2020
60
December, 2017
54
August, 2017
48
November, 2018
40
May, 2022
35
August, 2021
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
2
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
1
February, 2020
Available data
651
bam
591
bigWig
442
fastq
418
bed narrowPeak
335
bigBed narrowPeak
165
tsv
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
11
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
755
Homo sapiens
Biosample type
379
cell line
350
tissue
14
in vitro differentiated cells
12
primary cell
Organ
939
pancreas
755
liver
659
connective tissue
510
epithelium
477
adipose tissue
341
kidney
325
heart
266
brain
223
vasculature
218
blood vessel
158
bone element
138
artery
117
limb
85
musculature of body
59
blood
59
bodily fluid
56
eye
43
nerve
37
embryo
24
spleen
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
skin of body
1
spinal cord
Project
755
AMP
Genome assembly (visualization)
592
hg19
503
GRCh38
Lab
684
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
25
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
16
inconsistent control read length
assay_title!
pCHi-C
target.investigated_as!
chromatin remodeller
month_released!
July, 2019
BIOSAMPLE
ASSAY
755 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
1
1
2
2
1
tissue
liver
143
165
20
2
3
1
1
1
right lobe of liver
10
1
1
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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