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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
269
ChIP-seq
155
total RNA-seq
151
ATAC-seq
99
single cell RNA-seq
26
DNase-seq
17
pCHi-C
9
RRBS
8
snATAC-seq
4
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
269
DNA binding
256
Transcription
186
DNA accessibility
10
DNA methylation
4
3D chromatin structure
Target of assay
233
histone
233
histone modification
122
broad histone mark
111
narrow histone mark
29
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
73
September, 2018
58
August, 2017
50
June, 2019
48
July, 2018
43
April, 2018
34
October, 2019
24
July, 2019
12
February, 2023
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
591
bam
582
bigWig
283
bed narrowPeak
261
tsv
230
fastq
100
tagAlign
97
bigBed narrowPeak
38
bed broadPeak
38
bigBed broadPeak
29
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
hdf5
1
tar
Organism
742
Homo sapiens
Biosample type
2512
tissue
742
primary cell
cell line
394
in vitro differentiated cells
10
stem cell
Organ
254
epithelium
194
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
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
537
AMP
204
T1D
1
ITG
Genome assembly (visualization)
603
hg19
511
GRCh38
Lab
502
AMP-T2D consortium
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
54
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
inconsistent control run_type
audit.WARNING.category!
inconsistent control run_type
biosample_type!
cell line
lab.title!
Klaus Kaestner, Upenn
organ_slims!
brain
BIOSAMPLE
ASSAY
742 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
pancreatic ductal cell
13
4
4
10
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