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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
4
pCHi-C
3
small RNA-seq
2
Hi-C
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
192
Transcription
29
DNA accessibility
7
DNA methylation
2
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
34
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
February, 2020
1
May, 2021
Available data
681
bam
622
bigWig
465
fastq
441
bed narrowPeak
358
bigBed narrowPeak
173
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
789
Homo sapiens
Biosample type
400
cell line
359
tissue
15
in vitro differentiated cells
15
primary cell
Organ
938
pancreas
788
liver
682
connective tissue
518
epithelium
489
adipose tissue
387
heart
353
kidney
274
brain
230
vasculature
224
blood vessel
159
bone element
139
artery
119
limb
92
musculature of body
69
blood
69
bodily fluid
60
eye
42
nerve
37
embryo
25
spleen
20
lung
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
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
788
AMP
1
T1D
Genome assembly (visualization)
623
hg19
531
GRCh38
Lab
718
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
1
Kyle Gaulton, 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
month_released!
February, 2020
files.file_type!
hic
BIOSAMPLE
ASSAY
789 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
1
2
1
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
2
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
megakaryocyte
1
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