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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
525
ChIP-seq
185
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
WGBS
Hi-C
3
pCHi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
525
DNA binding
186
Transcription
29
DNA accessibility
5
DNA methylation
1
DNA sequencing
Target of assay
311
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
21
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
54
August, 2017
53
November, 2018
40
May, 2022
36
December, 2017
34
August, 2021
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
February, 2020
Available data
647
bam
587
bigWig
437
fastq
414
bed narrowPeak
331
bigBed narrowPeak
167
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
tar
2
bed bedMethyl
2
bigBed bedMethyl
1
bed bed3
1
csv
1
vcf
Organism
751
Homo sapiens
Biosample type
399
cell line
325
tissue
15
in vitro differentiated cells
12
primary cell
Organ
931
pancreas
751
liver
666
connective tissue
505
epithelium
479
adipose tissue
365
heart
342
kidney
268
brain
221
vasculature
216
blood vessel
159
bone element
138
artery
117
limb
84
musculature of body
68
blood
68
bodily fluid
60
eye
43
nerve
37
embryo
25
spleen
20
lung
20
vein
18
ureter
16
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
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
751
AMP
Genome assembly (visualization)
587
hg19
497
GRCh38
Lab
681
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
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
month_released!
July, 2019
audit.ERROR.category!
inconsistent control
assay_title!
Hi-C
BIOSAMPLE
ASSAY
751 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
1
tissue
liver
118
165
20
2
3
1
1
1
right lobe of liver
10
1
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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