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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
235
ChIP-seq
155
total RNA-seq
151
ATAC-seq
102
single cell RNA-seq
31
DNase-seq
17
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
259
Transcription
235
DNA binding
191
DNA accessibility
11
DNA methylation
7
3D chromatin structure
Target of assay
193
histone
193
histone modification
101
broad histone mark
92
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
55
June, 2019
48
July, 2018
47
August, 2017
43
April, 2018
41
September, 2018
34
October, 2019
31
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
565
bam
559
bigWig
264
tsv
263
bed narrowPeak
196
fastq
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
720
Homo sapiens
Biosample type
2711
tissue
720
primary cell
649
cell line
388
in vitro differentiated cells
10
stem cell
Organ
233
epithelium
150
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
515
AMP
204
T1D
1
ITG
Genome assembly (visualization)
581
hg19
482
GRCh38
Lab
480
AMP-T2D consortium
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
54
inconsistent ontology term
1
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
720 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
85
54
15
1
1
pancreatic beta cell
13
10
7
12
pancreatic alpha cell
13
10
6
12
CD8-positive, alpha-beta T cell
33
4
2
1
naive thymus-derived CD4-positive, alpha-beta T cell
2
1
22
1
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