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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
395
ChIP-seq
3
Hi-C
2
DNase-seq
2
STARR-seq
1
ATAC-seq
1
RRBS
1
WGBS
1
pCHi-C
1
whole genome sequencing assay
Assay category
395
DNA binding
Transcription
3
3D chromatin structure
3
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
other post-translational modification
Date released
313
November, 2017
46
November, 2018
26
August, 2021
15
December, 2017
February, 2021
2
July, 2019
2
June, 2019
1
December, 2018
1
May, 2020
1
October, 2019
Available data
380
bam
375
fastq
345
bigWig
325
bed narrowPeak
307
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
6
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe bed3+
1
hdf5
1
hic
1
tsv
1
vcf
Organism
407
Homo sapiens
Biosample type
383
cell line
tissue
15
in vitro differentiated cells
9
primary cell
Organ
407
liver
304
epithelium
247
pancreas
107
connective tissue
69
blood
69
bodily fluid
45
kidney
35
vasculature
29
blood vessel
23
embryo
22
vein
18
brain
12
musculature of body
9
heart
5
eye
1
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
Project
407
AMP
Genome assembly (visualization)
343
hg19
280
GRCh38
Lab
385
AMP-T2D consortium
22
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_slims!
Transcription
biosample_type!
tissue
month_released!
February, 2021
target.investigated_as!
other post-translational modification
BIOSAMPLE
ASSAY
407 results
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ChIP-seq
Hi-C
DNase-seq
STARR-seq
ATAC-seq
RRBS
WGBS
pCHi-C
whole genome sequencing assay
cell line
HepG2
376
2
2
1
1
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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