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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
107
ChIP-seq
102
ATAC-seq
53
total RNA-seq
41
WGBS
19
DNase-seq
8
Hi-C
6
MeRIP-seq
6
RRBS
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
FAIRE-seq
Assay category
122
DNA accessibility
107
DNA binding
53
Transcription
47
DNA methylation
8
3D chromatin structure
Target of assay
78
histone
78
histone modification
41
narrow histone mark
37
broad histone mark
26
control
6
RNA binding protein
6
transcription factor
3
nucleotide modification
Date released
80
May, 2022
50
February, 2023
35
September, 2018
32
October, 2019
29
August, 2017
20
June, 2019
19
September, 2020
17
May, 2021
15
November, 2019
8
July, 2019
7
August, 2020
6
August, 2021
6
November, 2017
6
November, 2020
5
May, 2019
5
September, 2017
3
March, 2020
3
October, 2022
Available data
293
bam
281
bigWig
238
fastq
tsv
133
bed narrowPeak
80
zippedFastqFolder
62
bigBed narrowPeak
22
bed broadPeak
22
bigBed broadPeak
21
bed bed3+
6
bed bedMethyl
6
bigBed bedMethyl
6
hic
5
bedpe bed3+
4
tagAlign
3
cool
2
hdf5
1
tar
Organism
345
Homo sapiens
Biosample type
290
primary cell
44
cell line
in vitro differentiated cells
12
tissue
Organ
602
liver
526
pancreas
346
epithelium
330
kidney
260
brain
185
heart
168
vasculature
162
blood vessel
115
limb
114
connective tissue
101
bone element
89
adipose tissue
87
musculature of body
83
artery
69
blood
69
bodily fluid
56
eye
38
nerve
24
spleen
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
Project
198
AMP
146
HPAP
2
T1D
Genome assembly (visualization)
146
hg19
130
GRCh38
Lab
194
AMP-T2D consortium
146
Klaus Kaestner, Upenn
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
51
inconsistent ontology term
4
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
files.file_type!
tsv
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
346 results
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ChIP-seq
ATAC-seq
total RNA-seq
WGBS
DNase-seq
Hi-C
MeRIP-seq
RRBS
Capture-C
CRISPR genome editing followed by sgRNA sequencing
FAIRE-seq
primary cell
pancreatic alpha cell
13
35
42
25
1
pancreatic beta cell
13
23
11
16
1
endothelial cell of umbilical vein
17
2
2
1
pancreatic acinar cell
8
9
1
pancreatic ductal cell
13
4
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cell line
EndoC_BH1
15
18
1
6
2
1
glomerular visceral epithelial cell
1
tissue
pigmented layer of retina
12
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