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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
494
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
494
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
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
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
281
November, 2017
194
May, 2020
59
December, 2017
54
August, 2017
40
May, 2022
34
November, 2018
33
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
February, 2020
Available data
624
bam
565
bigWig
407
fastq
385
bed narrowPeak
303
bigBed narrowPeak
174
tsv
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
2
tar
1
bed bed3
1
csv
1
vcf
Organism
729
Homo sapiens
Biosample type
358
tissue
345
cell line
13
in vitro differentiated cells
13
primary cell
Organ
928
pancreas
729
liver
673
connective tissue
508
epithelium
486
adipose tissue
350
kidney
344
heart
280
brain
226
vasculature
221
blood vessel
159
bone element
140
artery
118
limb
90
musculature of body
60
eye
59
blood
59
bodily fluid
43
nerve
37
embryo
25
spleen
20
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
729
AMP
Genome assembly (visualization)
567
hg19
480
GRCh38
Lab
660
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
21
inconsistent control read length
5
inconsistent control run_type
lab.title!
Xin Sun, UCSD
target.investigated_as!
RNA binding protein
assay_slims!
3D chromatin structure
BIOSAMPLE
ASSAY
729 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
144
167
20
2
3
1
1
1
1
right lobe of liver
9
3
1
2
1
2
cell line
HepG2
324
14
1
1
2
2
1
in vitro differentiated cells
hepatocyte
13
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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