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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
408
ChIP-seq
76
total RNA-seq
10
ATAC-seq
5
DNase-seq
3
Hi-C
2
STARR-seq
2
pCHi-C
1
whole genome sequencing assay
Assay category
408
DNA binding
76
Transcription
15
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
304
transcription factor
82
recombinant protein
66
control
57
RNA binding protein
35
histone
35
histone modification
21
chromatin remodeller
18
narrow histone mark
17
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
68
February, 2021
45
November, 2018
35
August, 2021
15
December, 2017
10
June, 2019
5
December, 2019
5
January, 2019
5
July, 2019
1
December, 2018
1
May, 2020
1
May, 2021
1
October, 2019
Available data
472
bam
424
bigWig
382
fastq
346
bed narrowPeak
315
bigBed narrowPeak
77
tsv
63
bed broadPeak
63
bigBed broadPeak
22
tagAlign
10
bed bed3+
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
507
Homo sapiens
Biosample type
tissue
466
cell line
25
primary cell
16
in vitro differentiated cells
Organ
428
liver
423
epithelium
361
pancreas
136
connective tissue
102
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
52
kidney
37
embryo
22
vein
20
brain
13
musculature of body
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
507
AMP
Genome assembly (visualization)
430
hg19
367
GRCh38
Lab
476
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
6
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
biosample_type!
tissue
files.file_type!
bed bedMethyl
zippedFastqFolder
BIOSAMPLE
ASSAY
507 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
STARR-seq
pCHi-C
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
smooth muscle cell of the coronary artery
6
52
8
primary cell
hepatocyte
4
5
1
cardiac fibroblast
5
3
Liver fetal (hepatocyte)
1
cardiac atrium fibroblast
1
cardiac ventricle fibroblast
1
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in vitro differentiated cells
hepatocyte
15
cardiac fibroblast
1
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