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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
164
ChIP-seq
161
ATAC-seq
154
single cell RNA-seq
35
snATAC-seq
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
6
WGBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
403
Transcription
228
DNA accessibility
164
DNA binding
17
DNA methylation
10
3D chromatin structure
Target of assay
237
histone
237
histone modification
122
broad histone mark
narrow histone mark
35
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
25
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, 2020
1
March, 2023
1
November, 2018
Available data
506
bam
501
bigWig
369
fastq
270
tsv
191
bed narrowPeak
83
bigBed narrowPeak
53
tagAlign
41
bed broadPeak
41
bigBed broadPeak
35
bed bed3+
19
zippedFastqFolder
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
839
Homo sapiens
Biosample type
2340
tissue
839
primary cell
643
cell line
339
in vitro differentiated cells
stem cell
Organ
291
epithelium
235
pancreas
35
connective tissue
31
kidney
29
vasculature
24
blood vessel
18
brain
16
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
484
AMP
190
HPAP
164
T1D
1
ITG
Genome assembly (visualization)
516
hg19
434
GRCh38
Lab
459
AMP-T2D consortium
190
Klaus Kaestner, Upenn
189
Kyle Gaulton, UCSD
1
ITG
Audit category:
45
inconsistent ontology term
31
audit script error
Audit category:
21
missing controlled_by
Audit category:
1
inconsistent assembly
biosample_type!
stem cell
lab.title!
KPMP
month_released!
May, 2022
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
839 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
RRBS
WGBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
44
15
1
1
pancreatic alpha cell
52
9
13
12
1
6
Langerhans cell
52
27
pancreatic beta cell
21
9
10
12
1
exocrine cell
39
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