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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
556
ChIP-seq
189
total RNA-seq
23
ATAC-seq
8
DNase-seq
6
Hi-C
4
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
FAIRE-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
556
DNA binding
193
Transcription
32
DNA accessibility
6
3D chromatin structure
4
DNA methylation
1
DNA sequencing
Target of assay
326
transcription factor
117
histone modification
116
histone
110
control
81
recombinant protein
65
narrow histone mark
56
RNA binding protein
51
broad histone mark
17
chromatin remodeller
2
other context
2
other post-translational modification
Date released
305
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
49
November, 2018
40
May, 2022
35
August, 2021
28
October, 2019
9
July, 2019
5
December, 2019
5
January, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
Available data
688
bam
625
bigWig
452
fastq
442
bed narrowPeak
359
bigBed narrowPeak
174
tsv
86
tagAlign
67
bed broadPeak
67
bigBed broadPeak
15
bed bed3+
4
hic
4
tar
3
bed bedMethyl
3
bedpe bed3+
bigBed bedMethyl
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
797
Homo sapiens
Biosample type
387
cell line
360
tissue
35
primary cell
15
in vitro differentiated cells
Organ
886
pancreas
775
liver
664
connective tissue
497
epithelium
477
adipose tissue
385
heart
350
kidney
280
brain
234
vasculature
229
blood vessel
159
bone element
141
artery
121
limb
92
musculature of body
69
blood
69
bodily fluid
60
eye
43
nerve
36
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
797
AMP
Genome assembly (visualization)
628
hg19
537
GRCh38
Lab
726
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
audit script error
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent control run_type
files.file_type!
bigBed bedMethyl
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
797 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
FAIRE-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
365
14
1
2
2
2
1
tissue
liver
145
167
20
2
1
3
1
1
1
right lobe of liver
10
3
1
2
1
2
primary cell
endothelial cell of umbilical vein
17
2
2
1
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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