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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
338
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
338
DNA binding
19
Transcription
3
3D chromatin structure
2
DNA accessibility
2
DNA methylation
1
DNA sequencing
Target of assay
255
transcription factor
82
recombinant protein
62
control
52
RNA binding protein
19
histone
19
histone modification
17
chromatin remodeller
10
narrow histone mark
9
broad histone mark
other context
1
other post-translational modification
Date released
256
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
380
fastq
355
bigWig
326
bed narrowPeak
307
bigBed narrowPeak
bed broadPeak
59
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
369
Homo sapiens
Biosample type
tissue
342
cell line
15
in vitro differentiated cells
12
primary cell
Organ
487
epithelium
440
pancreas
369
liver
130
connective tissue
91
vasculature
89
blood vessel
77
heart
69
blood
69
bodily fluid
68
artery
45
kidney
37
embryo
18
vein
13
musculature of body
10
brain
4
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
369
AMP
Genome assembly (visualization)
296
hg19
246
GRCh38
Lab
338
AMP-T2D consortium
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
biosample_type!
tissue
files.file_type!
bed broadPeak
target.investigated_as!
other context
BIOSAMPLE
ASSAY
369 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
319
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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