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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
322
total RNA-seq
139
ChIP-seq
81
ATAC-seq
11
snATAC-seq
10
MeRIP-seq
8
DNase-seq
6
Hi-C
4
WGBS
2
Capture-C
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
324
Transcription
139
DNA binding
102
DNA accessibility
6
3D chromatin structure
6
DNA methylation
Target of assay
93
histone
93
histone modification
51
broad histone mark
42
narrow histone mark
41
control
19
transcription factor
RNA binding protein
5
nucleotide modification
Date released
145
August, 2017
120
July, 2018
61
May, 2021
54
November, 2019
45
October, 2018
26
February, 2021
24
May, 2022
19
February, 2023
18
October, 2019
14
March, 2020
10
November, 2020
8
January, 2021
7
November, 2018
6
April, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
October, 2017
4
August, 2021
4
June, 2019
2
May, 2019
1
August, 2022
1
February, 2020
Available data
486
bam
422
bigWig
309
tsv
205
fastq
138
bed narrowPeak
63
bigBed narrowPeak
27
bed bed3+
21
bed broadPeak
19
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
4
bedpe bed3+
4
hic
1
bedpe
1
hdf5
Organism
583
Homo sapiens
Biosample type
497
tissue
primary cell
91
cell line
3
in vitro differentiated cells
Organ
719
liver
636
connective tissue
591
pancreas
484
adipose tissue
335
heart
317
kidney
265
brain
196
blood vessel
196
vasculature
158
bone element
138
artery
122
limb
115
epithelium
82
musculature of body
56
eye
51
blood
51
bodily fluid
43
nerve
37
embryo
25
spleen
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
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
557
AMP
34
T1D
Genome assembly (visualization)
464
hg19
434
GRCh38
Lab
522
AMP-T2D consortium
51
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
75
inconsistent ontology term
1
audit script error
Audit category:
9
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
target.investigated_as!
RNA binding protein
biosample_type!
primary cell
BIOSAMPLE
ASSAY
591 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
MeRIP-seq
DNase-seq
Hi-C
WGBS
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
tissue
islet of Langerhans
284
48
58
7
4
1
3
1
1
body of pancreas
3
30
4
4
2
2
pancreas
2
15
4
2
1
2
1
1
1
endocrine pancreas
16
cell line
EndoC_BH1
33
14
19
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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