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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
151
ATAC-seq
142
ChIP-seq
102
single cell RNA-seq
55
total RNA-seq
27
DNase-seq
10
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
178
DNA accessibility
159
Transcription
142
DNA binding
11
DNA methylation
3
3D chromatin structure
Target of assay
107
histone
107
histone modification
58
narrow histone mark
49
broad histone mark
29
control
9
RNA binding protein
9
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
73
September, 2018
59
August, 2017
53
June, 2019
48
July, 2018
43
April, 2018
27
July, 2019
20
May, 2021
13
October, 2019
12
February, 2023
6
November, 2017
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, 2023
1
November, 2018
Available data
402
bam
364
bigWig
237
fastq
166
tsv
164
bed narrowPeak
92
bigBed narrowPeak
41
bed broadPeak
41
bigBed broadPeak
29
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
494
Homo sapiens
Biosample type
2592
tissue
591
cell line
494
primary cell
347
in vitro differentiated cells
10
stem cell
Organ
254
epithelium
194
pancreas
38
connective tissue
37
vasculature
36
kidney
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
493
AMP
1
ITG
Genome assembly (visualization)
385
hg19
328
GRCh38
Lab
493
AMP-T2D consortium
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
49
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
Klaus Kaestner, Upenn
organ_slims!
blood vessel
BIOSAMPLE
ASSAY
494 results
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ATAC-seq
ChIP-seq
single cell RNA-seq
total RNA-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
pCHi-C
primary cell
pancreatic beta cell
7
13
12
10
pancreatic alpha cell
6
13
12
10
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
5
8
12
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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