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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
316
total RNA-seq
148
ChIP-seq
81
ATAC-seq
11
snATAC-seq
MeRIP-seq
6
DNase-seq
6
Hi-C
6
single cell RNA-seq
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
1
pCHi-C
Assay category
324
Transcription
148
DNA binding
99
DNA accessibility
6
3D chromatin structure
2
DNA methylation
Target of assay
93
histone
93
histone modification
51
broad histone mark
42
narrow histone mark
36
control
19
transcription factor
9
RNA binding protein
Date released
147
August, 2017
120
July, 2018
61
May, 2021
55
November, 2019
51
October, 2018
26
February, 2021
24
May, 2022
19
February, 2023
18
October, 2019
14
March, 2020
8
January, 2021
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
488
bam
424
bigWig
309
tsv
206
fastq
143
bed narrowPeak
66
bigBed narrowPeak
27
bed bed3+
19
bed broadPeak
19
tagAlign
6
txt
5
bigBed broadPeak
4
bedpe bed3+
4
hic
2
bed bedMethyl
2
bigBed bedMethyl
1
bedpe
1
hdf5
Organism
575
Homo sapiens
Biosample type
494
tissue
primary cell
86
cell line
3
in vitro differentiated cells
Organ
724
liver
644
connective tissue
583
pancreas
488
adipose tissue
380
heart
318
kidney
263
brain
199
blood vessel
199
vasculature
158
bone element
139
artery
122
limb
112
epithelium
82
musculature of body
56
eye
46
blood
46
bodily fluid
43
nerve
37
embryo
20
lung
18
ureter
16
skeleton
16
spleen
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
549
AMP
34
T1D
Genome assembly (visualization)
470
hg19
437
GRCh38
Lab
524
AMP-T2D consortium
51
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
70
inconsistent ontology term
1
audit script error
Audit category:
10
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
assay_title!
MeRIP-seq
biosample_type!
primary cell
month_released!
November, 2018
BIOSAMPLE
ASSAY
583 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
DNase-seq
Hi-C
single cell RNA-seq
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
pCHi-C
tissue
islet of Langerhans
278
50
58
7
1
3
6
1
1
body of pancreas
3
35
4
2
2
pancreas
2
16
4
2
1
1
1
endocrine pancreas
16
cell line
EndoC_BH1
33
15
19
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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