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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
130
ChIP-seq
100
single cell RNA-seq
84
ATAC-seq
54
total RNA-seq
22
DNase-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
156
Transcription
130
DNA binding
107
DNA accessibility
10
DNA methylation
6
3D chromatin structure
Target of assay
116
histone
116
histone modification
62
narrow histone mark
54
broad histone mark
10
RNA binding protein
10
transcription factor
7
control
1
chromatin remodeller
Date released
72
September, 2018
48
July, 2018
47
August, 2017
45
May, 2020
43
April, 2018
40
June, 2019
31
July, 2019
26
October, 2019
14
May, 2021
9
November, 2017
6
November, 2020
5
December, 2019
5
September, 2017
4
May, 2019
3
August, 2018
3
August, 2021
3
February, 2021
3
June, 2018
2
October, 2018
1
March, 2020
Available data
394
bam
381
bigWig
226
fastq
174
bed narrowPeak
156
tsv
102
bigBed narrowPeak
42
bed broadPeak
42
bigBed broadPeak
28
bed bed3+
15
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
410
Homo sapiens
Biosample type
1712
tissue
515
cell line
410
primary cell
285
in vitro differentiated cells
3
stem cell
Organ
224
epithelium
182
pancreas
34
connective tissue
31
vasculature
25
blood vessel
25
kidney
21
brain
17
vein
13
liver
12
musculature of body
10
heart
4
eye
2
adipose tissue
2
artery
1
pericardium
Project
410
AMP
Genome assembly (visualization)
410
hg19
345
GRCh38
Lab
410
AMP-T2D consortium
215
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
38
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
assay_slims!
DNA sequencing
BIOSAMPLE
ASSAY
410 results
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ChIP-seq
single cell RNA-seq
ATAC-seq
total RNA-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic beta cell
7
12
7
10
pancreatic alpha cell
7
12
6
10
pancreatic ductal cell
13
10
4
4
pancreatic acinar cell
8
12
5
4
pancreatic endocrine cell
23
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