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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
279
ChIP-seq
total RNA-seq
151
ATAC-seq
102
single cell RNA-seq
31
DNase-seq
17
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
279
DNA binding
191
DNA accessibility
104
Transcription
11
DNA methylation
7
3D chromatin structure
Target of assay
237
histone
237
histone modification
122
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
151
May, 2021
100
May, 2020
59
August, 2017
55
June, 2019
48
July, 2018
47
September, 2018
43
April, 2018
32
October, 2019
18
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
February, 2021
2
November, 2020
1
March, 2020
1
March, 2023
1
November, 2018
Available data
459
bam
451
bigWig
295
bed narrowPeak
212
fastq
114
tsv
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
609
Homo sapiens
Biosample type
1723
tissue
609
primary cell
549
cell line
258
in vitro differentiated cells
10
stem cell
Organ
214
epithelium
166
pancreas
35
vasculature
30
kidney
29
blood vessel
29
connective tissue
22
vein
21
brain
13
musculature of body
9
heart
9
liver
8
blood
8
bodily fluid
5
eye
1
adipose tissue
1
bone element
1
bone marrow
Project
500
AMP
108
T1D
1
ITG
Genome assembly (visualization)
473
hg19
376
GRCh38
Lab
467
AMP-T2D consortium
Klaus Kaestner, Upenn
141
Kyle Gaulton, UCSD
1
ITG
Audit category:
50
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_title!
total RNA-seq
lab.title!
Klaus Kaestner, Upenn
month_released!
October, 2017
BIOSAMPLE
ASSAY
609 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
85
15
1
1
CD8-positive, alpha-beta T cell
33
2
1
pancreatic beta cell
13
7
12
pancreatic alpha cell
13
6
12
pancreatic ductal cell
13
4
10
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