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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
total RNA-seq
89
ATAC-seq
88
ChIP-seq
74
single cell RNA-seq
47
WGBS
6
MeRIP-seq
4
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
187
Transcription
90
DNA accessibility
88
DNA binding
47
DNA methylation
4
3D chromatin structure
Target of assay
68
histone
68
histone modification
37
narrow histone mark
31
broad histone mark
22
control
3
nucleotide modification
1
transcription factor
Date released
80
May, 2022
72
September, 2018
41
August, 2017
38
February, 2023
37
July, 2018
33
April, 2018
32
February, 2021
24
May, 2021
19
September, 2020
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
258
fastq
245
bam
238
bigWig
141
tsv
80
zippedFastqFolder
79
bed narrowPeak
29
bigBed narrowPeak
3
bedpe bed3+
3
cool
3
hic
3
tagAlign
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
424
Homo sapiens
Biosample type
tissue
346
primary cell
76
cell line
3
in vitro differentiated cells
Organ
492
epithelium
427
liver
425
pancreas
137
connective tissue
102
vasculature
96
blood vessel
80
heart
69
blood
69
bodily fluid
68
artery
55
kidney
37
embryo
21
brain
21
vein
14
musculature of body
5
eye
3
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
269
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
236
GRCh38
231
hg19
Lab
267
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
65
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
files.file_type!
tar
month_released!
November, 2019
biosample_type!
tissue
BIOSAMPLE
ASSAY
425 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
WGBS
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
52
35
13
12
31
1
pancreatic beta cell
21
23
13
12
16
1
pancreatic acinar cell
4
9
8
12
1
pancreatic ductal cell
4
4
13
10
pancreatic endocrine cell
23
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cell line
EndoC_BH1
32
18
2
6
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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