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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
307
total RNA-seq
135
ChIP-seq
70
ATAC-seq
10
MeRIP-seq
8
DNase-seq
6
Hi-C
6
single cell RNA-seq
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
1
snATAC-seq
Assay category
315
Transcription
135
DNA binding
81
DNA accessibility
6
3D chromatin structure
6
DNA methylation
Target of assay
89
histone
89
histone modification
51
broad histone mark
41
control
38
narrow histone mark
19
transcription factor
RNA binding protein
5
nucleotide modification
Date released
145
August, 2017
120
July, 2018
60
May, 2021
54
November, 2019
45
October, 2018
26
February, 2021
24
May, 2022
18
October, 2019
10
November, 2020
7
March, 2020
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
1
February, 2023
Available data
480
bam
416
bigWig
307
tsv
205
fastq
134
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
549
Homo sapiens
Biosample type
467
tissue
primary cell
87
cell line
3
in vitro differentiated cells
Organ
719
liver
636
connective tissue
557
pancreas
484
adipose tissue
370
heart
270
kidney
265
brain
196
blood vessel
196
vasculature
158
bone element
138
artery
122
limb
111
epithelium
82
musculature of body
56
eye
51
blood
51
bodily fluid
43
nerve
37
embryo
25
spleen
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
557
AMP
34
T1D
Genome assembly (visualization)
458
hg19
428
GRCh38
Lab
514
AMP-T2D consortium
25
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:
71
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
557 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
DNase-seq
Hi-C
single cell RNA-seq
WGBS
Capture-C
FAIRE-seq
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
snATAC-seq
tissue
islet of Langerhans
271
46
47
4
1
3
6
1
1
1
body of pancreas
3
30
4
4
2
2
pancreas
2
15
2
1
2
1
1
1
endocrine pancreas
16
cell line
EndoC_BH1
31
12
19
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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