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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
4
Transcription
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
63
December, 2017
54
August, 2017
53
November, 2018
50
May, 2020
26
August, 2021
20
May, 2022
6
July, 2019
6
October, 2019
2
February, 2021
2
June, 2019
1
December, 2018
1
March, 2020
Available data
522
bam
463
bigWig
460
fastq
441
bed narrowPeak
358
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
3
tsv
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
599
Homo sapiens
Biosample type
385
cell line
190
tissue
15
in vitro differentiated cells
9
primary cell
Organ
599
liver
531
pancreas
393
epithelium
286
kidney
278
heart
267
brain
205
connective tissue
174
vasculature
168
blood vessel
115
limb
96
bone element
91
adipose tissue
88
musculature of body
85
artery
61
blood
61
bodily fluid
38
eye
38
nerve
24
spleen
23
embryo
22
vein
18
ureter
12
skeleton
9
lung
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
Project
599
AMP
Genome assembly (visualization)
465
hg19
372
GRCh38
Lab
557
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
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
assay_title!
pCHi-C
snATAC-seq
total RNA-seq
BIOSAMPLE
ASSAY
599 results
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ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
1
tissue
liver
145
20
2
3
1
1
1
1
right lobe of liver
10
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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