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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
510
ChIP-seq
23
ATAC-seq
20
total RNA-seq
6
DNase-seq
5
WGBS
4
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
510
DNA binding
29
DNA accessibility
21
Transcription
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
307
November, 2017
53
December, 2017
53
November, 2018
50
May, 2020
40
May, 2022
35
August, 2017
24
August, 2021
3
February, 2021
3
July, 2019
3
October, 2019
2
June, 2019
1
December, 2018
1
March, 2020
Available data
652
bam
592
bigWig
440
fastq
412
bed narrowPeak
337
bigBed narrowPeak
tsv
68
tagAlign
55
bed broadPeak
55
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
575
Homo sapiens
Biosample type
377
cell line
182
tissue
8
in vitro differentiated cells
8
primary cell
Organ
575
liver
451
pancreas
324
epithelium
315
kidney
190
brain
168
heart
162
connective tissue
123
vasculature
117
blood vessel
101
bone element
limb
70
adipose tissue
69
artery
69
blood
69
bodily fluid
67
musculature of body
56
eye
22
nerve
20
spleen
19
embryo
19
lung
18
ureter
16
skeleton
13
vein
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
575
AMP
Genome assembly (visualization)
433
hg19
341
GRCh38
Lab
514
AMP-T2D consortium
40
Karen Mohlke, UNC
21
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
organ_slims!
limb
target.investigated_as!
broad histone mark
files.file_type!
tsv
BIOSAMPLE
ASSAY
575 results
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ChIP-seq
ATAC-seq
total RNA-seq
DNase-seq
WGBS
Hi-C
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
369
1
1
2
2
1
1
tissue
liver
123
20
20
2
3
1
1
1
right lobe of liver
7
1
2
1
in vitro differentiated cells
hepatocyte
8
primary cell
hepatocyte
3
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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