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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
93
total RNA-seq
71
ATAC-seq
69
ChIP-seq
69
single cell RNA-seq
47
WGBS
15
DNase-seq
5
Hi-C
5
RRBS
Assay category
162
Transcription
86
DNA accessibility
69
DNA binding
52
DNA methylation
5
3D chromatin structure
Target of assay
49
histone
49
histone modification
27
narrow histone mark
22
broad histone mark
17
control
3
RNA binding protein
3
transcription factor
Date released
80
May, 2022
61
September, 2018
37
February, 2023
33
April, 2018
32
July, 2018
29
August, 2017
19
September, 2020
16
June, 2019
12
July, 2019
11
October, 2019
7
August, 2020
6
February, 2021
6
November, 2017
5
December, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
May, 2019
2
October, 2018
1
June, 2018
Available data
237
fastq
213
bam
210
bigWig
115
tsv
87
bed narrowPeak
80
zippedFastqFolder
43
bigBed narrowPeak
18
bed bed3+
17
bed broadPeak
17
bigBed broadPeak
5
bed bedMethyl
5
bigBed bedMethyl
4
tagAlign
3
bedpe bed3+
3
cool
3
hic
2
hdf5
Organism
374
Homo sapiens
Biosample type
374
primary cell
19
in vitro differentiated cells
15
tissue
3
cell line
Organ
396
epithelium
341
pancreas
36
vasculature
31
blood vessel
28
kidney
26
connective tissue
vein
21
brain
13
liver
8
blood
8
bodily fluid
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
222
AMP
152
HPAP
Genome assembly (visualization)
206
GRCh38
202
hg19
Lab
222
AMP-T2D consortium
152
Klaus Kaestner, Upenn
Audit category:
inconsistent ontology term
3
audit script error
Audit category:
21
missing controlled_by
Audit category:
4
inconsistent control read length
organ_slims!
vein
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
374 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
WGBS
DNase-seq
Hi-C
RRBS
primary cell
pancreatic alpha cell
52
35
13
12
31
1
pancreatic beta cell
21
23
13
12
16
1
pancreatic acinar cell
4
9
8
11
1
pancreatic ductal cell
4
4
13
10
hepatocyte
5
4
1
1
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