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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
184
total RNA-seq
23
ATAC-seq
3
Hi-C
3
small RNA-seq
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
whole genome sequencing assay
Assay category
546
DNA binding
187
Transcription
24
DNA accessibility
DNA methylation
3
3D chromatin structure
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
47
August, 2017
40
May, 2022
32
August, 2021
7
July, 2019
7
October, 2019
5
December, 2019
January, 2019
3
March, 2020
1
December, 2018
1
February, 2020
1
February, 2021
Available data
675
bam
616
bigWig
457
fastq
441
bed narrowPeak
358
bigBed narrowPeak
169
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
csv
1
hdf5
1
vcf
Organism
765
Homo sapiens
Biosample type
394
cell line
349
tissue
15
in vitro differentiated cells
7
primary cell
Organ
864
pancreas
765
liver
650
connective tissue
479
adipose tissue
450
epithelium
353
heart
267
kidney
249
brain
220
vasculature
217
blood vessel
159
bone element
137
artery
85
limb
56
eye
56
musculature of body
51
blood
51
bodily fluid
41
nerve
34
embryo
20
lung
20
vein
16
skeleton
15
spleen
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
spinal cord
1
stomach
1
urinary bladder
Project
765
AMP
Genome assembly (visualization)
605
hg19
514
GRCh38
Lab
694
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
assay_slims!
DNA methylation
files.file_type!
bed bed3+
csv
month_released!
January, 2019
BIOSAMPLE
ASSAY
765 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
small RNA-seq
STARR-seq
pCHi-C
DNase-seq
whole genome sequencing assay
cell line
HepG2
378
9
1
2
2
1
1
tissue
liver
142
167
20
1
1
1
right lobe of liver
10
3
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
5
Liver fetal (hepatocyte)
1
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