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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
184
total RNA-seq
23
ATAC-seq
5
WGBS
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
188
Transcription
24
DNA accessibility
7
DNA methylation
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
40
May, 2022
32
August, 2021
9
July, 2019
7
October, 2019
December, 2019
5
January, 2019
3
March, 2020
2
February, 2021
1
December, 2018
1
February, 2020
Available data
676
bam
617
bigWig
465
fastq
441
bed narrowPeak
358
bigBed narrowPeak
169
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
773
Homo sapiens
Biosample type
400
cell line
355
tissue
15
in vitro differentiated cells
3
primary cell
Organ
917
pancreas
773
liver
657
connective tissue
497
epithelium
485
adipose tissue
363
heart
273
kidney
251
brain
223
vasculature
219
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
62
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
773
AMP
Genome assembly (visualization)
607
hg19
515
GRCh38
Lab
702
AMP-T2D consortium
40
Karen Mohlke, UNC
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
files.file_type!
bed bed3+
month_released!
December, 2019
BIOSAMPLE
ASSAY
773 results
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ChIP-seq
total RNA-seq
ATAC-seq
WGBS
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
167
20
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
1
Liver fetal (hepatocyte)
1
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