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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
114
total RNA-seq
101
ChIP-seq
90
ATAC-seq
47
WGBS
37
single cell RNA-seq
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
151
Transcription
101
DNA binding
91
DNA accessibility
47
DNA methylation
5
3D chromatin structure
Target of assay
78
histone
78
histone modification
41
narrow histone mark
37
broad histone mark
24
control
3
nucleotide modification
2
transcription factor
1
RNA binding protein
Date released
80
May, 2022
72
September, 2018
41
August, 2017
38
February, 2023
July, 2018
33
April, 2018
32
February, 2021
24
May, 2021
19
September, 2020
16
November, 2019
15
October, 2019
7
August, 2020
6
November, 2020
5
March, 2020
5
September, 2017
3
August, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
June, 2018
Available data
223
bam
221
fastq
213
bigWig
105
tsv
91
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
403
Homo sapiens
Biosample type
tissue
309
primary cell
92
cell line
3
in vitro differentiated cells
Organ
476
epithelium
430
liver
404
pancreas
135
connective tissue
103
vasculature
97
blood vessel
80
heart
69
blood
69
bodily fluid
68
artery
55
kidney
37
embryo
22
vein
21
brain
14
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
248
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
212
GRCh38
208
hg19
Lab
246
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
76
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
biosample_type!
tissue
month_released!
July, 2018
BIOSAMPLE
ASSAY
404 results
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total RNA-seq
ChIP-seq
ATAC-seq
WGBS
single cell RNA-seq
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
52
13
35
31
5
1
pancreatic beta cell
21
13
23
16
3
1
pancreatic acinar cell
4
8
9
7
1
pancreatic ductal cell
4
13
4
7
pancreatic endocrine cell
23
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cell line
EndoC_BH1
33
15
19
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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