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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
185
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
pCHi-C
4
WGBS
3
Hi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
186
Transcription
29
DNA accessibility
5
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
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
54
August, 2017
53
November, 2018
40
May, 2022
35
August, 2021
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
1
May, 2021
Available data
674
bam
614
bigWig
465
fastq
441
bed narrowPeak
358
bigBed narrowPeak
168
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
vcf
Organism
783
Homo sapiens
Biosample type
401
cell line
355
tissue
15
in vitro differentiated cells
12
primary cell
Organ
938
pancreas
781
liver
666
connective tissue
511
epithelium
479
adipose tissue
368
heart
343
kidney
268
brain
224
vasculature
219
blood vessel
159
bone element
138
artery
117
limb
86
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
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
782
AMP
1
T1D
Genome assembly (visualization)
616
hg19
524
GRCh38
Lab
711
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
1
Kyle Gaulton, 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
audit.WARNING.category!
inconsistent assembly
month_released!
July, 2019
BIOSAMPLE
ASSAY
783 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
pCHi-C
WGBS
Hi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
1
2
2
1
tissue
liver
145
165
20
2
1
3
1
1
1
right lobe of liver
10
1
1
2
thymus
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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