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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
total RNA-seq
23
ATAC-seq
6
DNase-seq
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
29
DNA accessibility
4
3D chromatin structure
4
Transcription
2
DNA methylation
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
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
52
November, 2018
51
August, 2017
51
May, 2020
26
August, 2021
20
May, 2022
6
October, 2019
5
July, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
December, 2018
Available data
521
bam
462
bigWig
458
fastq
441
bed narrowPeak
358
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
5
tsv
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
597
Homo sapiens
Biosample type
386
cell line
187
tissue
15
in vitro differentiated cells
9
primary cell
Organ
597
liver
498
pancreas
346
epithelium
313
heart
294
kidney
269
brain
204
connective tissue
173
vasculature
167
blood vessel
114
limb
97
bone element
89
musculature of body
87
adipose tissue
85
artery
69
blood
69
bodily fluid
42
eye
38
nerve
23
embryo
23
spleen
22
vein
20
lung
18
ureter
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
597
AMP
Genome assembly (visualization)
466
hg19
371
GRCh38
Lab
555
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
assay_title!
CRISPR genome editing followed by DNA sequencing
WGBS
total RNA-seq
BIOSAMPLE
ASSAY
597 results
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ChIP-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
tissue
liver
145
20
2
1
1
1
1
1
right lobe of liver
10
1
2
2
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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