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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
519
ChIP-seq
189
total RNA-seq
23
ATAC-seq
5
WGBS
3
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
519
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
321
transcription factor
107
control
88
histone modification
87
histone
81
recombinant protein
52
RNA binding protein
52
narrow histone mark
35
broad histone mark
12
chromatin remodeller
2
other context
2
other post-translational modification
Date released
294
November, 2017
194
May, 2020
63
December, 2017
50
August, 2017
45
November, 2018
40
May, 2022
32
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
Available data
654
bam
595
bigWig
438
fastq
416
bed narrowPeak
333
bigBed narrowPeak
175
tsv
75
tagAlign
50
bed broadPeak
50
bigBed broadPeak
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
752
Homo sapiens
Biosample type
374
cell line
355
tissue
15
in vitro differentiated cells
8
primary cell
Organ
908
pancreas
751
liver
655
connective tissue
498
epithelium
485
adipose tissue
363
heart
276
kidney
251
brain
223
vasculature
219
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
62
musculature of body
57
eye
41
nerve
32
embryo
24
spleen
20
lung
20
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
752
AMP
Genome assembly (visualization)
585
hg19
497
GRCh38
Lab
681
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:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
752 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
cell line
HepG2
352
14
1
1
2
1
2
1
tissue
liver
141
167
20
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
1
sigmoid colon
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
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