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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
547
ChIP-seq
187
total RNA-seq
22
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
547
DNA binding
191
Transcription
28
DNA accessibility
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
98
histone modification
97
histone
82
recombinant protein
58
RNA binding protein
58
narrow histone mark
39
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
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
673
bam
615
bigWig
465
fastq
435
bed narrowPeak
358
bigBed narrowPeak
171
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
781
Homo sapiens
Biosample type
401
cell line
352
tissue
15
in vitro differentiated cells
13
primary cell
Organ
903
pancreas
781
liver
678
connective tissue
489
adipose tissue
483
epithelium
378
heart
316
kidney
198
brain
185
vasculature
179
blood vessel
159
bone element
115
artery
90
musculature of body
61
blood
61
bodily fluid
53
limb
40
eye
37
embryo
24
spleen
18
ureter
16
skeleton
9
lung
2
pericardium
1
bone marrow
1
nerve
1
spinal cord
1
thymus
Project
781
AMP
Genome assembly (visualization)
616
hg19
523
GRCh38
Lab
710
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
month_released!
October, 2019
March, 2020
assay_title!
snATAC-seq
BIOSAMPLE
ASSAY
781 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
140
165
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
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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