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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
114
total RNA-seq
74
single cell RNA-seq
67
ATAC-seq
47
WGBS
34
ChIP-seq
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
188
Transcription
67
DNA accessibility
47
DNA methylation
34
DNA binding
5
3D chromatin structure
Target of assay
24
control
13
histone
13
histone modification
8
narrow histone mark
5
broad histone mark
3
nucleotide modification
Date released
80
May, 2022
38
February, 2023
37
July, 2018
33
April, 2018
32
February, 2021
26
September, 2018
24
August, 2017
21
May, 2021
19
September, 2020
8
October, 2019
7
August, 2020
6
November, 2020
4
March, 2020
4
November, 2019
3
August, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
June, 2018
Available data
260
bam
258
fastq
250
bigWig
142
tsv
bed narrowPeak
80
zippedFastqFolder
29
bigBed narrowPeak
4
bedpe bed3+
4
hic
3
cool
3
tagAlign
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
349
Homo sapiens
Biosample type
tissue
278
primary cell
71
cell line
1
in vitro differentiated cells
Organ
367
epithelium
350
pancreas
101
liver
75
connective tissue
70
vasculature
68
blood vessel
62
heart
56
artery
25
kidney
18
embryo
15
blood
15
bodily fluid
10
brain
9
vein
5
musculature of body
3
adipose tissue
2
eye
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
196
AMP
152
HPAP
2
T1D
Genome assembly (visualization)
158
GRCh38
154
hg19
Lab
192
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
67
inconsistent ontology term
3
audit script error
Audit category:
12
missing controlled_by
Audit category:
1
inconsistent assembly
biosample_type!
tissue
files.file_type!
bed narrowPeak
month_released!
December, 2017
March, 2023
BIOSAMPLE
ASSAY
350 results
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total RNA-seq
single cell RNA-seq
ATAC-seq
WGBS
ChIP-seq
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
primary cell
pancreatic alpha cell
52
12
29
31
6
1
pancreatic beta cell
21
12
16
16
6
1
pancreatic acinar cell
4
12
4
1
pancreatic ductal cell
4
10
pancreatic endocrine cell
12
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cell line
EndoC_BH1
33
18
2
6
1
2
1
Panc1
7
1
in vitro differentiated cells
pancreatic PP cell
1
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