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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
98
ChIP-seq
90
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
98
DNA binding
91
DNA accessibility
47
DNA methylation
5
3D chromatin structure
Target of assay
77
histone
77
histone modification
40
narrow histone mark
37
broad histone mark
23
control
3
nucleotide modification
1
RNA binding protein
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
21
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
258
fastq
257
bam
248
bigWig
142
tsv
89
bed narrowPeak
80
zippedFastqFolder
29
bigBed narrowPeak
4
bedpe bed3+
4
hic
3
cool
2
bed bed3+
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
Organism
437
Homo sapiens
Biosample type
504
tissue
346
primary cell
92
cell line
3
in vitro differentiated cells
Organ
485
epithelium
438
pancreas
413
liver
103
vasculature
97
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
53
kidney
37
connective tissue
22
vein
21
brain
14
musculature of body
8
embryo
5
eye
2
adipose tissue
1
pericardium
Project
282
AMP
152
HPAP
4
T1D
Genome assembly (visualization)
247
GRCh38
243
hg19
Lab
280
AMP-T2D consortium
152
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
81
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!
pCHi-C
organ_slims!
spleen
BIOSAMPLE
ASSAY
438 results
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total RNA-seq
ChIP-seq
ATAC-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
35
12
31
1
pancreatic beta cell
21
13
23
12
16
1
pancreatic acinar cell
4
8
9
12
1
pancreatic ductal cell
4
13
4
10
pancreatic endocrine cell
23
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cell line
EndoC_BH1
33
15
19
6
1
2
1
Panc1
13
1
1
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