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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
189
total RNA-seq
22
ATAC-seq
6
DNase-seq
5
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
193
Transcription
28
DNA accessibility
7
DNA methylation
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
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
54
August, 2017
53
November, 2018
40
May, 2022
34
August, 2021
9
July, 2019
6
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
2
June, 2019
2
March, 2020
1
February, 2020
Available data
680
bam
621
bigWig
464
fastq
440
bed narrowPeak
358
bigBed narrowPeak
174
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
1
bed bed3
1
csv
1
vcf
Organism
786
Homo sapiens
Biosample type
399
cell line
360
tissue
15
in vitro differentiated cells
12
primary cell
Organ
853
pancreas
786
liver
664
connective tissue
490
adipose tissue
426
epithelium
384
heart
330
kidney
280
brain
230
vasculature
225
blood vessel
141
artery
117
limb
81
musculature of body
75
bone element
69
blood
69
bodily fluid
61
eye
43
nerve
31
embryo
25
spleen
20
lung
20
vein
18
ureter
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
Project
786
AMP
Genome assembly (visualization)
621
hg19
530
GRCh38
Lab
716
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
assay_slims!
3D chromatin structure
lab.title!
Rohit N. Kulkarni, M.D., Ph.D.
BIOSAMPLE
ASSAY
786 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
1
2
2
1
tissue
liver
145
167
20
2
3
1
1
1
1
right lobe of liver
10
3
1
2
1
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
hepatic stellate cell
1
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