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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
546
ChIP-seq
169
total RNA-seq
5
WGBS
3
ATAC-seq
3
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
546
DNA binding
173
Transcription
7
DNA methylation
4
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
336
transcription factor
107
control
100
histone modification
99
histone
82
recombinant protein
58
RNA binding protein
58
narrow histone mark
41
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
51
August, 2017
50
November, 2018
May, 2022
32
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
Available data
681
bam
602
bigWig
465
fastq
421
bed narrowPeak
358
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
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
738
Homo sapiens
Biosample type
400
cell line
315
tissue
15
in vitro differentiated cells
8
primary cell
Organ
813
pancreas
738
liver
657
connective tissue
485
adipose tissue
423
epithelium
323
heart
276
kidney
251
brain
223
vasculature
219
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
61
musculature of body
57
eye
41
nerve
34
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
738
AMP
Genome assembly (visualization)
592
hg19
520
GRCh38
Lab
707
AMP-T2D consortium
31
Bing Ren, 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
month_released!
May, 2022
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
738 results
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ChIP-seq
total RNA-seq
WGBS
ATAC-seq
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
1
1
tissue
liver
142
147
3
1
1
1
1
1
right lobe of liver
10
3
1
1
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
1
5
1
Liver fetal (hepatocyte)
1
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