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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
188
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
192
Transcription
29
DNA accessibility
7
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
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
53
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
680
bam
621
bigWig
465
fastq
441
bed narrowPeak
358
bigBed narrowPeak
172
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
csv
1
hdf5
1
hic
1
vcf
Organism
788
Homo sapiens
Biosample type
401
cell line
358
tissue
15
in vitro differentiated cells
14
primary cell
Organ
930
pancreas
788
liver
682
connective tissue
518
epithelium
490
adipose tissue
386
heart
352
kidney
284
brain
232
vasculature
226
blood vessel
159
bone element
141
artery
122
limb
91
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
24
spleen
21
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pericardium
2
pituitary gland
1
bone marrow
lymph node
1
skin of body
1
spinal cord
1
thymus
Project
788
AMP
Genome assembly (visualization)
623
hg19
530
GRCh38
Lab
717
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
organ_slims!
lymph node
audit.WARNING.category!
inconsistent assembly
month_released!
March, 2020
BIOSAMPLE
ASSAY
788 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
2
1
tissue
liver
145
166
20
2
3
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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