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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
151
ATAC-seq
95
total RNA-seq
87
single cell RNA-seq
71
ChIP-seq
56
snATAC-seq
47
WGBS
16
pCHi-C
9
RRBS
5
Hi-C
4
DNase-seq
1
DNAme array
1
FAIRE-seq
Assay category
212
DNA accessibility
182
Transcription
71
DNA binding
57
DNA methylation
5
3D chromatin structure
Target of assay
39
histone
39
histone modification
31
control
26
broad histone mark
13
narrow histone mark
1
RNA binding protein
1
transcription factor
Date released
134
May, 2022
102
May, 2020
88
February, 2023
56
September, 2020
55
May, 2021
45
February, 2021
17
August, 2017
12
October, 2019
8
January, 2021
8
July, 2019
7
June, 2019
3
November, 2017
3
October, 2022
1
August, 2021
1
March, 2020
1
May, 2019
1
November, 2018
1
September, 2018
Available data
180
fastq
153
zippedFastqFolder
94
bigWig
83
bam
34
bed narrowPeak
18
tsv
9
bed bedMethyl
9
bigBed bedMethyl
bed bed3+
5
hic
4
bed broadPeak
4
bedpe bed3+
4
bigBed broadPeak
4
bigBed narrowPeak
4
hdf5
3
cool
2
csv
2
tagAlign
1
tar
Organism
543
Homo sapiens
Biosample type
864
tissue
543
primary cell
195
cell line
123
in vitro differentiated cells
7
stem cell
Organ
179
epithelium
154
pancreas
13
vasculature
11
blood vessel
10
vein
8
blood
8
bodily fluid
8
kidney
5
connective tissue
4
brain
3
heart
3
musculature of body
eye
2
liver
1
bone element
1
bone marrow
Project
314
HPAP
205
AMP
24
T1D
Genome assembly (visualization)
594
hg19
GRCh38
Lab
314
Klaus Kaestner, Upenn
172
AMP-T2D consortium
57
Kyle Gaulton, UCSD
Audit category:
31
audit script error
18
inconsistent ontology term
assembly!
GRCh38
audit.WARNING.category!
inconsistent control run_type
files.file_type!
bed bed3+
organ_slims!
eye
BIOSAMPLE
ASSAY
543 results
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ATAC-seq
total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
DNase-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
22
42
6
31
1
pancreatic beta cell
13
11
6
16
1
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
1
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