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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
2
DNase-seq
2
Hi-C
2
STARR-seq
2
pCHi-C
1
ATAC-seq
1
RRBS
1
WGBS
1
whole genome sequencing assay
Assay category
397
DNA binding
19
Transcription
3
DNA accessibility
2
3D chromatin structure
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
34
August, 2021
15
December, 2017
5
December, 2019
5
January, 2019
2
February, 2021
2
July, 2019
2
June, 2019
1
December, 2018
1
May, 2020
Available data
392
bam
382
fastq
357
bigWig
327
bed narrowPeak
309
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
hic
1
vcf
Organism
428
Homo sapiens
Biosample type
400
cell line
tissue
15
in vitro differentiated cells
13
primary cell
Organ
428
liver
413
epithelium
357
pancreas
119
connective tissue
100
vasculature
95
blood vessel
74
heart
69
blood
69
bodily fluid
68
artery
32
kidney
31
embryo
21
brain
20
vein
6
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
428
AMP
Genome assembly (visualization)
355
hg19
292
GRCh38
Lab
398
AMP-T2D consortium
30
Bing Ren, UCSD
Audit category:
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
files.file_type!
hic
biosample_type!
tissue
BIOSAMPLE
ASSAY
428 results
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ChIP-seq
total RNA-seq
DNase-seq
Hi-C
STARR-seq
pCHi-C
ATAC-seq
RRBS
WGBS
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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