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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
494
ChIP-seq
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
494
DNA binding
24
DNA accessibility
7
DNA methylation
4
3D chromatin structure
4
Transcription
1
DNA sequencing
Target of assay
294
transcription factor
108
control
89
histone modification
88
histone
82
recombinant protein
54
RNA binding protein
54
narrow histone mark
34
broad histone mark
19
chromatin remodeller
1
other context
1
other post-translational modification
Date released
257
November, 2017
63
December, 2017
54
August, 2017
51
May, 2020
50
November, 2018
26
August, 2021
20
May, 2022
6
July, 2019
6
October, 2019
3
February, 2021
2
March, 2020
1
December, 2018
Available data
522
bam
463
bigWig
460
fastq
441
bed narrowPeak
358
bigBed narrowPeak
86
tagAlign
63
bed broadPeak
bigBed broadPeak
13
bed bed3+
5
tsv
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
539
Homo sapiens
Biosample type
329
cell line
188
tissue
15
in vitro differentiated cells
7
primary cell
Organ
542
pancreas
539
liver
371
epithelium
291
heart
231
brain
216
kidney
201
connective tissue
158
vasculature
156
blood vessel
97
bone element
91
adipose tissue
81
artery
79
limb
69
blood
69
bodily fluid
57
musculature of body
38
eye
36
nerve
24
spleen
23
embryo
20
lung
18
vein
12
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
pericardium
1
skin of body
1
small intestine
1
stomach
1
urinary bladder
Project
539
AMP
Genome assembly (visualization)
403
hg19
323
GRCh38
Lab
497
AMP-T2D consortium
22
Bing Ren, UCSD
20
Karen Mohlke, UNC
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
14
inconsistent control read length
8
inconsistent control run_type
assay_title!
CRISPR genome editing followed by DNA sequencing
total RNA-seq
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
539 results
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ChIP-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
320
1
1
2
2
2
1
tissue
liver
145
20
3
1
1
1
1
1
right lobe of liver
10
1
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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