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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
239
total RNA-seq
187
ATAC-seq
180
single cell RNA-seq
140
ChIP-seq
56
snATAC-seq
47
WGBS
27
DNase-seq
16
pCHi-C
10
Hi-C
8
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
421
Transcription
271
DNA accessibility
140
DNA binding
56
DNA methylation
10
3D chromatin structure
Target of assay
220
histone
220
histone modification
broad histone mark
106
narrow histone mark
30
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
139
May, 2020
139
May, 2021
134
May, 2022
82
February, 2023
59
September, 2020
56
September, 2018
48
February, 2021
43
April, 2018
43
August, 2017
42
July, 2018
30
June, 2019
29
July, 2019
20
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
October, 2022
2
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
466
bam
460
bigWig
369
fastq
249
tsv
164
bed narrowPeak
153
zippedFastqFolder
72
bigBed narrowPeak
49
tagAlign
37
bed broadPeak
37
bigBed broadPeak
32
bed bed3+
8
bed bedMethyl
8
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
914
Homo sapiens
Biosample type
2379
tissue
914
primary cell
557
cell line
223
in vitro differentiated cells
8
stem cell
Organ
365
epithelium
314
pancreas
27
vasculature
23
kidney
22
blood vessel
21
brain
20
connective tissue
13
vein
12
liver
8
blood
8
bodily fluid
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
434
AMP
324
HPAP
155
T1D
1
ITG
Genome assembly (visualization)
470
hg19
406
GRCh38
Lab
419
AMP-T2D consortium
324
Klaus Kaestner, Upenn
170
Kyle Gaulton, UCSD
1
ITG
Audit category:
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
month_released!
November, 2020
target.investigated_as!
broad histone mark
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
914 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
31
1
Langerhans cell
85
48
monocyte
54
15
41
1
1
pancreatic beta cell
21
23
12
10
16
1
exocrine cell
39
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