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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
200
ATAC-seq
187
single cell RNA-seq
157
ChIP-seq
56
snATAC-seq
31
DNase-seq
17
pCHi-C
10
Hi-C
2
small RNA-seq
1
FAIRE-seq
Assay category
436
Transcription
288
DNA accessibility
157
DNA binding
DNA methylation
10
3D chromatin structure
Target of assay
237
histone
237
histone modification
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
139
May, 2021
93
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
July, 2018
47
June, 2019
43
April, 2018
42
August, 2017
42
February, 2021
22
July, 2019
22
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
509
bam
495
bigWig
369
fastq
264
tsv
183
bed narrowPeak
112
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
908
Homo sapiens
Biosample type
2416
tissue
908
primary cell
642
cell line
338
in vitro differentiated cells
9
stem cell
Organ
322
epithelium
272
pancreas
34
connective tissue
28
kidney
27
vasculature
22
blood vessel
20
brain
13
vein
12
heart
12
liver
9
musculature of body
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
470
AMP
277
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
500
hg19
440
GRCh38
Lab
455
AMP-T2D consortium
277
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
44
inconsistent ontology term
31
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA methylation
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
908 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
small RNA-seq
FAIRE-seq
primary cell
Langerhans cell
85
48
monocyte
54
15
41
1
pancreatic alpha cell
52
35
12
10
1
pancreatic beta cell
21
23
12
10
1
exocrine cell
39
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