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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
400
ChIP-seq
189
total RNA-seq
23
ATAC-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
400
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
282
transcription factor
108
control
88
histone modification
87
histone
recombinant protein
53
narrow histone mark
52
RNA binding protein
34
broad histone mark
13
chromatin remodeller
1
other context
1
other post-translational modification
Date released
194
May, 2020
181
November, 2017
63
December, 2017
54
August, 2017
40
May, 2022
35
August, 2021
32
November, 2018
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
1
December, 2018
1
February, 2020
Available data
587
bam
529
bigWig
371
fastq
348
bed narrowPeak
265
bigBed narrowPeak
174
tsv
86
tagAlign
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
634
Homo sapiens
Biosample type
358
tissue
249
cell line
15
in vitro differentiated cells
12
primary cell
Organ
861
pancreas
652
connective tissue
634
liver
476
adipose tissue
475
epithelium
363
heart
269
kidney
237
brain
219
vasculature
217
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
57
eye
50
musculature of body
41
nerve
36
embryo
24
spleen
20
lung
18
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
634
AMP
Genome assembly (visualization)
472
hg19
396
GRCh38
Lab
563
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:
missing controlled_by
Audit category:
8
inconsistent control read length
2
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
bed broadPeak
month_released!
November, 2020
target.investigated_as!
recombinant protein
BIOSAMPLE
ASSAY
634 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
145
167
20
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
1
cell line
HepG2
226
14
1
1
2
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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