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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
431
ChIP-seq
189
total RNA-seq
23
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
431
DNA binding
193
Transcription
24
DNA accessibility
7
DNA methylation
3D chromatin structure
1
DNA sequencing
Target of assay
261
transcription factor
95
control
82
recombinant protein
72
histone modification
71
histone
50
RNA binding protein
47
narrow histone mark
24
broad histone mark
16
chromatin remodeller
1
other context
1
other post-translational modification
Date released
257
November, 2017
194
May, 2020
December, 2017
54
August, 2017
50
November, 2018
40
May, 2022
34
August, 2021
9
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
March, 2020
1
February, 2020
Available data
618
bam
571
bigWig
401
fastq
391
bed narrowPeak
308
bigBed narrowPeak
174
tsv
86
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
661
Homo sapiens
Biosample type
341
cell line
309
tissue
11
primary cell
Organ
916
pancreas
673
connective tissue
661
liver
488
adipose tissue
475
epithelium
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
24
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
661
AMP
Genome assembly (visualization)
509
hg19
432
GRCh38
Lab
591
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
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
month_released!
December, 2017
BIOSAMPLE
ASSAY
661 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
cell line
HepG2
320
14
1
1
2
2
1
tissue
liver
107
167
20
3
1
1
1
1
right lobe of liver
3
1
1
2
1
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
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