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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
146
ChIP-seq
102
single cell RNA-seq
57
total RNA-seq
DNase-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
161
Transcription
152
DNA accessibility
146
DNA binding
11
DNA methylation
6
3D chromatin structure
Target of assay
109
histone
109
histone modification
58
narrow histone mark
51
broad histone mark
30
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
73
September, 2018
48
July, 2018
45
August, 2017
43
April, 2018
31
July, 2019
31
June, 2019
30
October, 2019
20
May, 2021
12
February, 2023
9
November, 2017
5
December, 2019
5
May, 2019
5
November, 2020
5
September, 2017
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
1
November, 2018
Available data
400
bam
359
bigWig
239
fastq
168
tsv
152
bed narrowPeak
80
bigBed narrowPeak
21
bed broadPeak
21
bigBed broadPeak
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
8
bed bed3+
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
477
Homo sapiens
Biosample type
2009
tissue
593
cell line
477
primary cell
299
in vitro differentiated cells
8
stem cell
Organ
232
epithelium
194
pancreas
32
connective tissue
31
vasculature
27
blood vessel
24
kidney
20
vein
16
brain
13
musculature of body
10
heart
8
liver
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
477
AMP
Genome assembly (visualization)
373
hg19
304
GRCh38
Lab
477
AMP-T2D consortium
324
Klaus Kaestner, Upenn
155
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
files.file_type!
tagAlign
assay_title!
DNase-seq
BIOSAMPLE
ASSAY
477 results
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ATAC-seq
ChIP-seq
single cell RNA-seq
total RNA-seq
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
7
13
12
10
pancreatic alpha cell
6
13
12
10
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
5
8
12
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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