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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
481
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
481
DNA binding
190
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
297
transcription factor
95
control
86
histone modification
85
histone
82
recombinant protein
53
narrow histone mark
51
RNA binding protein
32
broad histone mark
12
chromatin remodeller
2
other context
2
other post-translational modification
Date released
311
November, 2017
194
May, 2020
December, 2017
54
August, 2017
49
November, 2018
40
May, 2022
35
August, 2021
7
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
607
bam
561
bigWig
394
fastq
383
bed narrowPeak
300
bigBed narrowPeak
171
tsv
86
tagAlign
63
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
717
Homo sapiens
Biosample type
393
cell line
310
tissue
14
primary cell
Organ
944
pancreas
717
liver
681
connective tissue
505
epithelium
488
adipose tissue
392
heart
353
kidney
282
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
94
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
25
spleen
24
embryo
22
vein
20
lung
18
ureter
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
717
AMP
Genome assembly (visualization)
564
hg19
472
GRCh38
Lab
646
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
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!
small RNA-seq
month_released!
December, 2017
audit.WARNING.category!
inconsistent control run_type
BIOSAMPLE
ASSAY
717 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
370
14
1
1
2
2
2
1
tissue
liver
107
167
20
2
3
1
1
1
1
right lobe of liver
3
1
2
1
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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