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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
192
total RNA-seq
187
ATAC-seq
single cell RNA-seq
158
ChIP-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
10
Hi-C
10
RRBS
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
275
DNA accessibility
194
Transcription
158
DNA binding
57
DNA methylation
10
3D chromatin structure
Target of assay
119
histone
119
histone modification
63
narrow histone mark
56
broad histone mark
29
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
May, 2021
147
May, 2020
101
May, 2022
88
February, 2023
72
September, 2018
59
August, 2017
55
June, 2019
36
February, 2021
34
October, 2019
28
July, 2019
19
September, 2020
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
Available data
360
bam
342
bigWig
281
fastq
168
bed narrowPeak
118
tsv
109
bigBed narrowPeak
101
zippedFastqFolder
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
695
Homo sapiens
Biosample type
2523
tissue
695
primary cell
641
cell line
260
in vitro differentiated cells
10
stem cell
Organ
336
epithelium
272
pancreas
37
vasculature
36
kidney
34
connective tissue
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
pericardium
Project
402
AMP
239
HPAP
53
T1D
1
ITG
Genome assembly (visualization)
344
hg19
287
GRCh38
Lab
402
AMP-T2D consortium
239
Klaus Kaestner, Upenn
53
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
single cell RNA-seq
month_released!
May, 2021
BIOSAMPLE
ASSAY
695 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
52
35
13
31
1
pancreatic beta cell
21
23
13
16
1
Langerhans cell
48
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
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