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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
546
ChIP-seq
190
total RNA-seq
23
ATAC-seq
WGBS
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
546
DNA binding
194
Transcription
24
DNA accessibility
3
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
336
transcription factor
107
control
100
histone modification
99
histone
82
recombinant protein
58
RNA binding protein
58
narrow histone mark
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
63
December, 2017
49
November, 2018
48
August, 2017
40
May, 2022
32
August, 2021
8
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
March, 2020
2
February, 2020
2
February, 2021
1
December, 2018
Available data
680
bam
621
bigWig
463
fastq
441
bed narrowPeak
358
bigBed narrowPeak
175
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
774
Homo sapiens
Biosample type
399
cell line
352
tissue
15
in vitro differentiated cells
8
primary cell
Organ
866
pancreas
773
liver
651
connective tissue
479
adipose tissue
456
epithelium
355
heart
276
kidney
251
brain
221
vasculature
217
blood vessel
159
bone element
137
artery
85
limb
69
blood
69
bodily fluid
61
musculature of body
57
eye
41
nerve
34
embryo
22
spleen
20
lung
20
vein
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
774
AMP
Genome assembly (visualization)
612
hg19
519
GRCh38
Lab
703
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
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
files.file_type!
bed bed3+
assay_title!
WGBS
BIOSAMPLE
ASSAY
774 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
tissue
liver
142
167
20
1
1
1
1
1
right lobe of liver
10
3
1
2
1
C1 segment of cervical spinal cord
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
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