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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
114
ChIP-seq
100
single cell RNA-seq
84
ATAC-seq
54
total RNA-seq
29
DNase-seq
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
156
Transcription
114
DNA accessibility
114
DNA binding
Target of assay
75
histone
75
histone modification
40
narrow histone mark
35
broad histone mark
32
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
55
June, 2019
48
July, 2018
46
August, 2017
45
May, 2020
43
April, 2018
40
September, 2018
31
October, 2019
18
July, 2019
14
May, 2021
9
November, 2017
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
Available data
385
bam
365
fastq
354
bigWig
174
tsv
153
zippedFastqFolder
149
bed narrowPeak
109
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
2
csv
1
bed bed3
1
tar
Organism
385
Homo sapiens
Biosample type
1858
tissue
569
cell line
385
primary cell
285
in vitro differentiated cells
3
stem cell
Organ
221
epithelium
150
pancreas
36
connective tissue
32
vasculature
31
kidney
27
blood vessel
20
vein
17
brain
13
musculature of body
12
heart
12
liver
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
385
AMP
Genome assembly (visualization)
350
hg19
301
GRCh38
Lab
385
AMP-T2D consortium
Kyle Gaulton, UCSD
Audit category:
41
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
vcf
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
385 results
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ChIP-seq
single cell RNA-seq
ATAC-seq
total RNA-seq
DNase-seq
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
13
12
7
10
pancreatic alpha cell
13
12
6
10
pancreatic acinar cell
12
5
4
endothelial cell of umbilical vein
17
2
1
pancreatic ductal cell
10
4
4
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