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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
489
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
4
Hi-C
3
pCHi-C
small RNA-seq
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
489
DNA binding
190
Transcription
29
DNA accessibility
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
305
transcription factor
95
control
86
histone modification
85
histone
82
recombinant protein
54
RNA binding protein
53
narrow histone mark
32
broad histone mark
20
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
December, 2017
52
November, 2018
50
August, 2017
40
May, 2022
35
August, 2021
7
October, 2019
5
December, 2019
5
January, 2019
5
July, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
614
bam
568
bigWig
399
fastq
391
bed narrowPeak
308
bigBed narrowPeak
171
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
718
Homo sapiens
Biosample type
400
cell line
305
tissue
13
primary cell
Organ
891
pancreas
718
liver
674
connective tissue
482
adipose tissue
452
epithelium
382
heart
349
kidney
280
brain
233
vasculature
228
blood vessel
159
bone element
141
artery
121
limb
88
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
24
embryo
23
spleen
22
vein
20
lung
18
ureter
16
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
spinal cord
1
stomach
1
urinary bladder
Project
718
AMP
Genome assembly (visualization)
570
hg19
477
GRCh38
Lab
647
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
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
assay_title!
small RNA-seq
month_released!
December, 2017
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
718 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
pCHi-C
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
tissue
liver
107
167
20
2
1
1
1
right lobe of liver
3
1
2
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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