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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
397
ChIP-seq
19
total RNA-seq
3
Hi-C
2
ATAC-seq
DNase-seq
2
STARR-seq
2
pCHi-C
1
RRBS
1
WGBS
1
whole genome sequencing assay
Assay category
397
DNA binding
19
Transcription
3
3D chromatin structure
2
DNA accessibility
2
DNA methylation
1
DNA sequencing
Target of assay
299
transcription factor
82
recombinant protein
62
control
56
RNA binding protein
33
histone
33
histone modification
21
chromatin remodeller
17
broad histone mark
16
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
46
November, 2018
35
August, 2021
15
December, 2017
5
December, 2019
5
January, 2019
2
February, 2021
2
July, 2019
1
December, 2018
1
May, 2020
1
October, 2019
Available data
391
bam
382
fastq
355
bigWig
326
bed narrowPeak
307
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
20
tsv
16
tagAlign
5
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
428
Homo sapiens
Biosample type
401
cell line
tissue
15
in vitro differentiated cells
12
primary cell
Organ
490
epithelium
440
pancreas
428
liver
130
connective tissue
97
vasculature
93
blood vessel
77
heart
69
blood
69
bodily fluid
68
artery
42
kidney
37
embryo
20
vein
16
brain
13
musculature of body
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
428
AMP
Genome assembly (visualization)
355
hg19
291
GRCh38
Lab
397
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_title!
DNase-seq
biosample_type!
tissue
BIOSAMPLE
ASSAY
428 results
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ChIP-seq
total RNA-seq
Hi-C
ATAC-seq
STARR-seq
pCHi-C
RRBS
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
2
1
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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