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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
243
ChIP-seq
136
ATAC-seq
124
total RNA-seq
101
single cell RNA-seq
29
DNase-seq
17
pCHi-C
9
RRBS
8
snATAC-seq
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
243
DNA binding
227
Transcription
174
DNA accessibility
10
DNA methylation
6
3D chromatin structure
Target of assay
202
histone
202
histone modification
104
broad histone mark
98
narrow histone mark
34
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
September, 2018
59
August, 2017
53
June, 2019
48
July, 2018
43
April, 2018
33
October, 2019
29
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
6
November, 2020
5
May, 2019
5
September, 2017
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
525
bam
520
bigWig
243
bed narrowPeak
233
tsv
167
fastq
96
tagAlign
93
bigBed narrowPeak
47
bed broadPeak
47
bigBed broadPeak
31
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
3
hdf5
3
hic
1
bed bed3
1
bedpe bed3+
1
csv
1
tar
Organism
677
Homo sapiens
Biosample type
2416
tissue
677
primary cell
379
in vitro differentiated cells
261
cell line
10
stem cell
Organ
193
epithelium
122
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
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
472
AMP
204
T1D
1
ITG
Genome assembly (visualization)
540
hg19
443
GRCh38
Lab
437
AMP-T2D consortium
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
53
inconsistent ontology term
1
audit script error
Audit category:
12
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
organ_slims!
liver
month_released!
September, 2018
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
677 results
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ChIP-seq
ATAC-seq
total RNA-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
15
54
1
1
CD8-positive, alpha-beta T cell
33
2
4
1
pancreatic alpha cell
13
3
12
pancreatic beta cell
13
3
12
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
1
1
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