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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
74
single cell RNA-seq
51
ATAC-seq
6
MeRIP-seq
6
WGBS
5
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
Assay category
188
Transcription
101
DNA binding
52
DNA accessibility
6
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
72
September, 2018
41
August, 2017
38
February, 2023
37
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
260
bam
258
fastq
250
bigWig
142
tsv
91
bed narrowPeak
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
360
Homo sapiens
Biosample type
tissue
266
primary cell
92
cell line
3
in vitro differentiated cells
Organ
430
liver
429
epithelium
361
pancreas
133
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
285
AMP
72
HPAP
4
T1D
Genome assembly (visualization)
249
GRCh38
245
hg19
Lab
283
AMP-T2D consortium
72
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
biosample_type!
tissue
files.file_type!
bed bedgraph
zippedFastqFolder
organ_slims!
nerve
BIOSAMPLE
ASSAY
361 results
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total RNA-seq
ChIP-seq
single cell RNA-seq
ATAC-seq
MeRIP-seq
WGBS
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
primary cell
pancreatic alpha cell
52
13
12
13
6
1
pancreatic beta cell
21
13
12
10
1
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
4
8
12
5
1
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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