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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
101
ChIP-seq
89
ATAC-seq
53
total RNA-seq
41
WGBS
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
101
DNA binding
90
DNA accessibility
53
Transcription
41
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
46
September, 2018
41
August, 2017
38
February, 2023
20
May, 2021
19
September, 2020
15
November, 2019
15
October, 2019
7
August, 2020
6
November, 2020
5
September, 2017
3
October, 2022
2
August, 2021
2
March, 2020
Available data
260
bam
258
fastq
250
bigWig
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
298
Homo sapiens
Biosample type
tissue
238
primary cell
58
cell line
3
in vitro differentiated cells
Organ
410
liver
356
epithelium
299
pancreas
116
connective tissue
69
blood
69
bodily fluid
49
vasculature
43
blood vessel
43
kidney
23
embryo
23
heart
22
vein
18
brain
14
artery
12
musculature of body
5
eye
1
adipose tissue
1
bone element
1
bone marrow
0
nerve
Project
151
AMP
146
HPAP
2
T1D
Genome assembly (visualization)
114
GRCh38
109
hg19
Lab
147
AMP-T2D consortium
146
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
42
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
files.file_type!
tsv
BIOSAMPLE
ASSAY
299 results
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ChIP-seq
ATAC-seq
total RNA-seq
WGBS
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
13
35
42
25
1
pancreatic beta cell
13
23
11
16
1
pancreatic endocrine cell
23
pancreatic acinar cell
8
9
1
pancreatic ductal cell
13
4
cell line
EndoC_BH1
15
18
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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