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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
105
ChIP-seq
74
total RNA-seq
54
ATAC-seq
36
single cell RNA-seq
19
DNase-seq
6
MeRIP-seq
6
RRBS
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
1
RNA microarray
Assay category
110
Transcription
105
DNA binding
74
DNA accessibility
6
DNA methylation
5
3D chromatin structure
Target of assay
76
histone
76
histone modification
39
narrow histone mark
37
broad histone mark
26
control
6
RNA binding protein
6
transcription factor
3
nucleotide modification
Date released
61
September, 2018
35
October, 2019
33
April, 2018
July, 2018
29
August, 2017
26
February, 2021
20
June, 2019
20
May, 2021
16
November, 2019
15
February, 2023
13
July, 2019
6
August, 2021
6
December, 2019
6
November, 2017
6
November, 2020
5
May, 2019
5
September, 2017
3
August, 2018
3
March, 2020
2
October, 2018
June, 2018
Available data
255
bam
233
bigWig
135
fastq
131
bed narrowPeak
112
tsv
62
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
4
tagAlign
3
hic
2
bedpe bed3+
2
hdf5
1
tar
Organism
309
Homo sapiens
Biosample type
220
primary cell
75
cell line
in vitro differentiated cells
15
tissue
Organ
776
liver
599
pancreas
584
connective tissue
490
adipose tissue
392
heart
310
epithelium
307
kidney
286
brain
236
vasculature
230
blood vessel
158
bone element
141
artery
122
limb
96
musculature of body
61
blood
61
bodily fluid
61
eye
43
nerve
25
spleen
22
vein
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
310
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
250
hg19
226
GRCh38
Lab
304
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
inconsistent ontology term
2
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
biosample_type!
in vitro differentiated cells
month_released!
July, 2018
June, 2018
BIOSAMPLE
ASSAY
310 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
MeRIP-seq
RRBS
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
RNA microarray
primary cell
pancreatic alpha cell
13
10
6
5
pancreatic beta cell
13
10
7
3
pancreatic ductal cell
13
4
4
6
pancreatic acinar cell
8
4
5
7
endothelial cell of umbilical vein
17
2
2
1
+ See 18 more…
cell line
EndoC_BH1
13
31
19
6
1
2
1
glomerular visceral epithelial cell
1
1
tissue
pigmented layer of retina
2
12
renal glomerulus
1
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