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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
90
ChIP-seq
19
total RNA-seq
3
Hi-C
2
ATAC-seq
2
STARR-seq
2
pCHi-C
1
RRBS
1
WGBS
1
whole genome sequencing assay
Assay category
90
DNA binding
19
Transcription
3
3D chromatin structure
2
DNA accessibility
2
DNA methylation
1
DNA sequencing
Target of assay
62
control
20
transcription factor
8
histone
8
histone modification
5
narrow histone mark
3
RNA binding protein
3
broad histone mark
1
recombinant protein
Date released
66
November, 2017
35
August, 2021
5
December, 2019
5
January, 2019
2
February, 2021
2
July, 2019
2
November, 2018
1
December, 2017
1
December, 2018
1
May, 2020
1
October, 2019
Available data
393
bam
382
fastq
357
bigWig
328
bed narrowPeak
bigBed narrowPeak
60
bed broadPeak
60
bigBed broadPeak
20
tsv
16
tagAlign
7
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
1
bed bed3
1
bedpe bed3+
1
hdf5
1
hic
1
vcf
Organism
121
Homo sapiens
Biosample type
tissue
108
cell line
12
primary cell
1
in vitro differentiated cells
Organ
433
epithelium
412
pancreas
121
liver
119
connective tissue
82
vasculature
80
blood vessel
74
heart
68
artery
38
kidney
37
embryo
15
blood
15
bodily fluid
10
brain
9
vein
5
musculature of body
3
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
0
lymph node
Project
121
AMP
Genome assembly (visualization)
52
hg19
16
GRCh38
Lab
90
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
biosample_type!
tissue
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
121 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
85
14
2
1
2
2
1
1
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
in vitro differentiated cells
hepatocyte
1
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