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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
186
ATAC-seq
186
single cell RNA-seq
151
ChIP-seq
total RNA-seq
48
snATAC-seq
47
WGBS
31
DNase-seq
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
266
DNA accessibility
188
Transcription
151
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
109
histone
109
histone modification
57
broad histone mark
52
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
100
May, 2020
55
June, 2019
51
May, 2021
48
July, 2018
47
August, 2017
47
February, 2021
43
April, 2018
43
September, 2020
32
October, 2019
18
July, 2019
September, 2018
12
February, 2023
9
November, 2017
7
August, 2020
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
3
October, 2022
2
November, 2020
1
March, 2020
1
March, 2023
1
November, 2018
Available data
319
bigWig
317
bam
230
fastq
165
bed narrowPeak
153
zippedFastqFolder
120
tsv
95
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
csv
1
tar
Organism
674
Homo sapiens
Biosample type
1696
tissue
674
primary cell
529
cell line
252
in vitro differentiated cells
10
stem cell
Organ
278
epithelium
207
pancreas
35
vasculature
30
kidney
29
blood vessel
28
connective tissue
22
vein
21
brain
13
musculature of body
9
heart
9
liver
5
eye
1
adipose tissue
Project
441
AMP
232
HPAP
T1D
1
ITG
Genome assembly (visualization)
334
hg19
244
GRCh38
Lab
408
AMP-T2D consortium
232
Klaus Kaestner, Upenn
33
Kyle Gaulton, UCSD
1
ITG
Audit category:
49
inconsistent ontology term
31
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
total RNA-seq
audit.NOT_COMPLIANT.category!
missing controlled_by
award.project!
T1D
month_released!
September, 2018
BIOSAMPLE
ASSAY
674 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
32
12
13
31
1
pancreatic beta cell
19
12
13
16
1
CD8-positive, alpha-beta T cell
2
33
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
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