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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
164
ChIP-seq
155
total RNA-seq
151
ATAC-seq
102
single cell RNA-seq
31
DNase-seq
17
pCHi-C
10
RRBS
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
259
Transcription
183
DNA accessibility
164
DNA binding
11
DNA methylation
7
3D chromatin structure
Target of assay
232
histone
232
histone modification
122
broad histone mark
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
154
May, 2021
147
May, 2020
58
September, 2018
48
July, 2018
44
June, 2019
43
April, 2018
37
August, 2017
31
July, 2019
25
October, 2019
12
February, 2023
January, 2021
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
February, 2021
3
June, 2018
2
August, 2021
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
506
bam
491
bigWig
264
tsv
200
fastq
191
bed narrowPeak
83
bigBed narrowPeak
53
tagAlign
41
bed broadPeak
41
bigBed broadPeak
35
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
641
Homo sapiens
Biosample type
2442
tissue
641
primary cell
622
cell line
324
in vitro differentiated cells
8
stem cell
Organ
219
epithelium
163
pancreas
35
connective tissue
31
kidney
29
vasculature
24
blood vessel
18
brain
16
vein
12
liver
11
heart
10
musculature of body
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
484
AMP
156
T1D
1
ITG
Genome assembly (visualization)
513
hg19
424
GRCh38
Lab
459
AMP-T2D consortium
Klaus Kaestner, Upenn
181
Kyle Gaulton, UCSD
1
ITG
Audit category:
45
inconsistent ontology term
1
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
audit.WARNING.category!
inconsistent control read length
lab.title!
Klaus Kaestner, Upenn
month_released!
January, 2021
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
641 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
44
54
15
1
1
pancreatic beta cell
9
10
7
12
pancreatic alpha cell
9
10
6
12
CD8-positive, alpha-beta T cell
23
4
2
1
naive thymus-derived CD4-positive, alpha-beta T cell
1
1
22
1
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