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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
403
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
305
transcription factor
95
control
histone modification
85
histone
82
recombinant protein
54
RNA binding protein
53
narrow histone mark
32
broad histone mark
20
chromatin remodeller
2
other context
2
other post-translational modification
Date released
300
November, 2017
167
May, 2020
53
November, 2018
December, 2017
40
May, 2022
29
August, 2021
21
August, 2017
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
2
October, 2019
1
December, 2018
1
February, 2020
Available data
555
bam
506
bigWig
374
fastq
327
bed narrowPeak
290
bigBed narrowPeak
174
tsv
49
bed broadPeak
49
bigBed broadPeak
28
tagAlign
10
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
642
Homo sapiens
Biosample type
383
cell line
248
tissue
11
primary cell
Organ
795
pancreas
642
liver
606
connective tissue
459
adipose tissue
426
epithelium
324
kidney
296
heart
165
vasculature
160
blood vessel
159
bone element
121
artery
99
brain
73
limb
blood
68
bodily fluid
63
musculature of body
58
eye
20
lung
19
nerve
19
spleen
18
embryo
18
ureter
16
skeleton
7
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
1
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
642
AMP
Genome assembly (visualization)
509
hg19
428
GRCh38
Lab
574
AMP-T2D consortium
40
Karen Mohlke, UNC
28
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
target.investigated_as!
histone modification
organ_slims!
blood
month_released!
December, 2017
BIOSAMPLE
ASSAY
642 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
360
14
1
1
2
2
2
1
tissue
liver
42
167
20
2
3
1
1
1
1
1
right lobe of liver
3
1
2
1
2
primary cell
hepatocyte
1
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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