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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
560
ChIP-seq
194
total RNA-seq
24
ATAC-seq
8
DNase-seq
5
WGBS
3
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
560
DNA binding
198
Transcription
32
DNA accessibility
7
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
311
transcription factor
127
histone modification
126
histone
119
control
82
recombinant protein
68
narrow histone mark
58
RNA binding protein
58
broad histone mark
21
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
54
August, 2017
53
November, 2018
49
October, 2019
40
May, 2022
36
December, 2017
34
August, 2021
10
July, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
February, 2020
2
June, 2019
2
March, 2020
1
December, 2018
Available data
696
bam
626
bigWig
441
bed narrowPeak
438
fastq
357
bigBed narrowPeak
179
tsv
86
tagAlign
65
bed broadPeak
65
bigBed broadPeak
15
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
805
Homo sapiens
Biosample type
400
cell line
376
tissue
15
in vitro differentiated cells
14
primary cell
Organ
939
pancreas
762
liver
684
connective tissue
518
epithelium
491
adipose tissue
390
heart
353
kidney
286
brain
233
vasculature
227
blood vessel
159
bone element
141
artery
122
limb
94
musculature of body
68
blood
68
bodily fluid
61
eye
43
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
spinal cord
1
stomach
1
urinary bladder
Project
805
AMP
Genome assembly (visualization)
627
hg19
535
GRCh38
Lab
735
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
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
files.file_type!
hic
audit.ERROR.category!
inconsistent control
BIOSAMPLE
ASSAY
805 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
118
167
20
2
3
1
1
1
1
tibial nerve
35
5
1
2
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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