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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
495
ChIP-seq
189
total RNA-seq
24
ATAC-seq
5
WGBS
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
495
DNA binding
193
Transcription
25
DNA accessibility
7
DNA methylation
3D chromatin structure
1
DNA sequencing
Target of assay
294
transcription factor
108
control
90
histone modification
89
histone
82
recombinant protein
55
narrow histone mark
54
RNA binding protein
34
broad histone mark
19
chromatin remodeller
1
other context
1
other post-translational modification
Date released
257
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
50
November, 2018
40
May, 2022
34
August, 2021
9
July, 2019
9
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
March, 2020
1
February, 2020
Available data
682
bam
622
bigWig
464
fastq
442
bed narrowPeak
358
bigBed narrowPeak
174
tsv
87
tagAlign
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
csv
1
vcf
Organism
726
Homo sapiens
Biosample type
359
tissue
341
cell line
15
in vitro differentiated cells
11
primary cell
Organ
916
pancreas
724
liver
673
connective tissue
494
epithelium
488
adipose tissue
360
heart
275
kidney
236
brain
214
vasculature
212
blood vessel
159
bone element
137
artery
82
limb
69
blood
69
bodily fluid
57
eye
44
musculature of body
41
nerve
37
embryo
24
spleen
20
lung
16
skeleton
16
vein
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
726
AMP
Genome assembly (visualization)
560
hg19
483
GRCh38
Lab
656
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
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
files.file_type!
bed broadPeak
assay_slims!
3D chromatin structure
BIOSAMPLE
ASSAY
726 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
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
right lobe of liver
10
3
1
1
2
1
islet of Langerhans
1
pituitary gland
1
cell line
HepG2
320
14
1
1
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
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