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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
235
ChIP-seq
200
ATAC-seq
single cell RNA-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
288
DNA accessibility
249
Transcription
235
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
193
histone
193
histone modification
101
broad histone mark
92
narrow histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
101
May, 2022
88
February, 2023
55
June, 2019
47
August, 2017
40
September, 2018
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
469
bigWig
465
bam
263
bed narrowPeak
237
fastq
170
tsv
109
bigBed narrowPeak
101
zippedFastqFolder
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
857
Homo sapiens
Biosample type
2537
tissue
857
primary cell
649
cell line
386
in vitro differentiated cells
10
stem cell
Organ
315
epithelium
228
pancreas
37
vasculature
36
kidney
35
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
bone element
1
bone marrow
1
pericardium
Project
413
AMP
239
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
484
hg19
392
GRCh38
Lab
378
AMP-T2D consortium
239
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
47
inconsistent ontology term
31
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
assay_title!
single cell RNA-seq
BIOSAMPLE
ASSAY
857 results
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total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
31
1
pancreatic beta cell
21
13
23
16
1
Langerhans cell
48
CD8-positive, alpha-beta T cell
4
33
2
1
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