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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
282
ChIP-seq
155
total RNA-seq
151
ATAC-seq
single cell RNA-seq
31
DNase-seq
21
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
2
small RNA-seq
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
DNAme array
1
FAIRE-seq
1
GRO-seq
Assay category
282
DNA binding
191
DNA accessibility
159
Transcription
11
DNA methylation
7
3D chromatin structure
Target of assay
239
histone
239
histone modification
123
broad histone mark
116
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
72
September, 2018
59
August, 2017
55
June, 2019
34
October, 2019
28
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
6
November, 2020
5
December, 2019
5
March, 2020
5
May, 2019
5
September, 2017
4
August, 2021
3
December, 2017
3
February, 2021
3
March, 2023
2
October, 2018
1
January, 2018
Available data
512
bam
506
bigWig
297
bed narrowPeak
168
tsv
150
fastq
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
40
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
670
Homo sapiens
Biosample type
2597
tissue
662
cell line
662
primary cell
392
in vitro differentiated cells
10
stem cell
Organ
184
epithelium
120
pancreas
37
vasculature
36
connective tissue
36
kidney
31
blood vessel
22
vein
18
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
465
AMP
204
T1D
2
community
1
ITG
Genome assembly (visualization)
528
hg19
429
GRCh38
1
hg18
Lab
430
AMP-T2D consortium
239
Kyle Gaulton, UCSD
Klaus Kaestner, Upenn
2
Anna Gloyn, Oxford
1
ITG
Audit category:
48
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
7
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
single cell RNA-seq
lab.title!
Klaus Kaestner, Upenn
month_released!
August, 2020
BIOSAMPLE
ASSAY
672 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
small RNA-seq
CRISPR RNA-seq
CRISPRi RNA-seq
DNAme array
FAIRE-seq
GRO-seq
primary cell
monocyte
85
54
15
1
1
CD8-positive, alpha-beta T cell
33
4
2
1
pancreatic beta cell
13
10
7
pancreatic alpha cell
13
10
6
naive thymus-derived CD4-positive, alpha-beta T cell
2
1
22
1
+ See 78 more…
stem cell
hESC
3
1
SB Ad3.1
1
1
mesenchymal stem cell
1
mesendoderm
1
neural progenitor cell (neural stem cell)
1
+ See 1 more…
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