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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
193
ATAC-seq
187
single cell RNA-seq
179
ChIP-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
281
DNA accessibility
179
DNA binding
58
DNA methylation
6
3D chromatin structure
Target of assay
139
histone
139
histone modification
71
broad histone mark
68
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
134
May, 2022
122
May, 2021
88
February, 2023
73
September, 2018
59
September, 2020
55
June, 2019
48
February, 2021
48
July, 2018
47
August, 2017
43
April, 2018
34
October, 2019
27
July, 2019
9
November, 2017
8
January, 2021
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
609
bam
606
bigWig
402
fastq
295
bed narrowPeak
270
tsv
153
zippedFastqFolder
109
bigBed narrowPeak
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
977
Homo sapiens
Biosample type
2539
tissue
977
primary cell
641
cell line
354
in vitro differentiated cells
10
stem cell
Organ
393
epithelium
339
pancreas
38
connective tissue
36
kidney
35
vasculature
29
blood vessel
22
vein
18
brain
14
musculature of body
13
heart
9
liver
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
539
AMP
317
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
525
hg19
431
GRCh38
Lab
504
AMP-T2D consortium
317
Klaus Kaestner, Upenn
155
Kyle Gaulton, UCSD
1
ITG
Audit category:
54
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
month_released!
August, 2020
files.file_type!
hdf5
tagAlign
BIOSAMPLE
ASSAY
977 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
30
12
13
31
1
Langerhans cell
85
48
pancreatic beta cell
21
21
12
13
16
1
monocyte
54
15
1
1
1
CD8-positive, alpha-beta T cell
4
2
33
1
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