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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
544
ChIP-seq
189
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
544
DNA binding
193
Transcription
29
DNA accessibility
4
3D chromatin structure
2
DNA methylation
1
DNA sequencing
Target of assay
330
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
55
RNA binding protein
42
broad histone mark
15
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
194
May, 2020
63
December, 2017
51
August, 2017
48
November, 2018
40
May, 2022
35
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
672
bam
613
bigWig
455
fastq
433
bed narrowPeak
350
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
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
778
Homo sapiens
Biosample type
392
cell line
357
tissue
15
in vitro differentiated cells
14
primary cell
Organ
778
liver
756
pancreas
677
connective tissue
485
adipose tissue
385
heart
368
epithelium
307
kidney
286
brain
234
vasculature
228
blood vessel
158
bone element
141
artery
121
limb
95
musculature of body
61
blood
61
bodily fluid
61
eye
43
nerve
37
embryo
23
spleen
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
778
AMP
Genome assembly (visualization)
617
hg19
524
GRCh38
Lab
707
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:
7
missing controlled_by
Audit category:
27
inconsistent control read length
inconsistent control run_type
assay_title!
WGBS
audit.WARNING.category!
inconsistent control run_type
month_released!
September, 2023
BIOSAMPLE
ASSAY
778 results
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ChIP-seq
total RNA-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
370
14
1
2
2
2
1
tissue
liver
145
167
20
2
1
1
1
1
1
right lobe of liver
10
3
1
2
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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