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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
139
ATAC-seq
137
ChIP-seq
95
single cell RNA-seq
57
total RNA-seq
28
DNase-seq
8
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
168
DNA accessibility
154
Transcription
137
DNA binding
9
DNA methylation
6
3D chromatin structure
Target of assay
106
histone
106
histone modification
56
narrow histone mark
50
broad histone mark
27
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
98
May, 2020
73
September, 2018
59
August, 2017
43
April, 2018
42
July, 2018
32
October, 2019
30
June, 2019
29
July, 2019
20
May, 2021
9
November, 2017
6
February, 2023
6
November, 2020
5
December, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
2
June, 2018
2
May, 2019
2
October, 2018
1
March, 2020
1
November, 2018
Available data
388
bam
354
bigWig
233
fastq
156
bed narrowPeak
155
tsv
86
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
32
bed bed3+
16
tagAlign
8
bed bedMethyl
8
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
475
Homo sapiens
Biosample type
2334
tissue
530
cell line
475
primary cell
226
in vitro differentiated cells
7
stem cell
Organ
244
epithelium
189
pancreas
36
vasculature
31
blood vessel
28
kidney
25
connective tissue
22
vein
21
brain
13
liver
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
475
AMP
Genome assembly (visualization)
372
hg19
313
GRCh38
Lab
475
AMP-T2D consortium
324
Klaus Kaestner, Upenn
234
Kyle Gaulton, UCSD
1
ITG
Audit category:
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
475 results
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ATAC-seq
ChIP-seq
single cell RNA-seq
total RNA-seq
DNase-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
11
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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