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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
546
ChIP-seq
23
ATAC-seq
WGBS
3
Hi-C
2
RRBS
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
whole genome sequencing assay
Assay category
546
DNA binding
Transcription
24
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
336
transcription factor
107
control
100
histone modification
99
histone
82
recombinant protein
58
RNA binding protein
58
narrow histone mark
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
51
May, 2020
49
November, 2018
48
August, 2017
23
August, 2021
20
May, 2022
6
October, 2019
2
March, 2020
1
December, 2018
1
February, 2021
1
July, 2019
Available data
517
bam
458
bigWig
458
fastq
440
bed narrowPeak
357
bigBed narrowPeak
86
tagAlign
62
bed broadPeak
62
bigBed broadPeak
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
2
tsv
1
bed bed3
1
hdf5
1
vcf
Organism
580
Homo sapiens
Biosample type
385
cell line
177
tissue
15
in vitro differentiated cells
3
primary cell
Organ
580
liver
387
pancreas
255
epithelium
227
brain
189
heart
connective tissue
154
vasculature
151
kidney
150
blood vessel
97
bone element
79
artery
78
adipose tissue
78
limb
69
blood
69
bodily fluid
52
musculature of body
38
eye
36
nerve
22
spleen
20
embryo
20
vein
12
skeleton
11
lung
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
580
AMP
Genome assembly (visualization)
450
hg19
357
GRCh38
Lab
538
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_slims!
Transcription
assay_title!
WGBS
files.file_type!
bed bed3+
organ_slims!
connective tissue
BIOSAMPLE
ASSAY
580 results
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ChIP-seq
ATAC-seq
Hi-C
RRBS
STARR-seq
pCHi-C
DNase-seq
whole genome sequencing assay
cell line
HepG2
378
1
2
2
1
1
tissue
liver
142
20
1
1
1
right lobe of liver
10
1
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
1
Liver fetal (hepatocyte)
1
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