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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
161
ATAC-seq
154
single cell RNA-seq
153
ChIP-seq
35
snATAC-seq
29
DNase-seq
17
pCHi-C
10
RRBS
8
Hi-C
6
WGBS
2
small RNA-seq
1
DNAme array
Assay category
403
Transcription
225
DNA accessibility
153
DNA binding
17
DNA methylation
8
3D chromatin structure
Target of assay
222
histone
222
histone modification
113
broad histone mark
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
154
May, 2021
147
May, 2020
May, 2022
88
February, 2023
59
September, 2020
58
September, 2018
48
February, 2021
48
July, 2018
44
June, 2019
43
April, 2018
37
August, 2017
31
July, 2019
10
October, 2019
8
January, 2021
7
August, 2020
6
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
August, 2021
2
October, 2018
1
March, 2023
1
November, 2018
Available data
492
bam
491
bigWig
369
fastq
270
tsv
183
bed narrowPeak
75
bigBed narrowPeak
53
tagAlign
37
bed broadPeak
37
bigBed broadPeak
33
bed bed3+
19
zippedFastqFolder
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
4
hic
3
bedpe bed3+
3
cool
2
csv
1
bed bed3
Organism
823
Homo sapiens
Biosample type
2387
tissue
823
primary cell
643
cell line
339
in vitro differentiated cells
8
stem cell
Organ
291
epithelium
235
pancreas
35
connective tissue
31
kidney
29
vasculature
24
blood vessel
18
brain
vein
12
liver
11
heart
10
musculature of body
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
468
AMP
190
HPAP
164
T1D
1
ITG
Genome assembly (visualization)
504
hg19
427
GRCh38
Lab
443
AMP-T2D consortium
190
Klaus Kaestner, Upenn
189
Kyle Gaulton, UCSD
1
ITG
Audit category:
45
inconsistent ontology term
30
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
assay_title!
CRISPRi RNA-seq
month_released!
May, 2022
organ_slims!
vein
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
823 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
pCHi-C
RRBS
Hi-C
WGBS
small RNA-seq
DNAme array
primary cell
monocyte
54
15
44
1
1
pancreatic alpha cell
52
13
12
9
1
6
Langerhans cell
52
27
pancreatic beta cell
21
10
12
9
1
exocrine cell
39
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