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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
ATAC-seq
74
single cell RNA-seq
47
WGBS
6
MeRIP-seq
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
188
Transcription
101
DNA binding
47
DNA methylation
5
3D chromatin structure
1
DNA accessibility
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
58
September, 2018
41
May, 2022
38
August, 2017
38
February, 2023
37
July, 2018
33
April, 2018
32
February, 2021
16
September, 2020
15
November, 2019
15
October, 2019
8
May, 2021
6
November, 2020
3
August, 2018
3
March, 2020
3
October, 2022
2
August, 2021
2
October, 2018
1
June, 2018
Available data
237
bam
226
fastq
216
bigWig
141
tsv
68
bed narrowPeak
41
zippedFastqFolder
7
bigBed narrowPeak
4
bedpe bed3+
4
hic
3
cool
3
tagAlign
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
350
Homo sapiens
Biosample type
tissue
275
primary cell
73
cell line
3
in vitro differentiated cells
Organ
428
liver
418
epithelium
351
pancreas
118
connective tissue
95
vasculature
89
blood vessel
72
heart
68
blood
68
bodily fluid
60
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
244
AMP
103
HPAP
4
T1D
Genome assembly (visualization)
220
hg19
216
GRCh38
Lab
242
AMP-T2D consortium
103
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
62
inconsistent ontology term
3
audit script error
Audit category:
44
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
assay_title!
ATAC-seq
biosample_type!
tissue
BIOSAMPLE
ASSAY
351 results
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total RNA-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
13
12
31
1
pancreatic beta cell
21
13
12
16
1
pancreatic ductal cell
4
13
10
pancreatic acinar cell
4
8
12
1
pancreatic endocrine cell
23
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cell line
EndoC_BH1
33
15
6
1
2
1
Panc1
13
1
1
in vitro differentiated cells
pancreatic PP cell
3
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