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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
274
ChIP-seq
155
total RNA-seq
151
ATAC-seq
102
single cell RNA-seq
31
DNase-seq
17
pCHi-C
10
RRBS
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
274
DNA binding
259
Transcription
183
DNA accessibility
11
DNA methylation
7
3D chromatin structure
Target of assay
232
histone
232
histone modification
122
broad histone mark
110
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
73
September, 2018
55
June, 2019
54
August, 2017
48
July, 2018
43
April, 2018
34
October, 2019
31
July, 2019
12
February, 2023
9
November, 2017
January, 2021
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
1
March, 2020
1
March, 2023
1
November, 2018
Available data
604
bam
598
bigWig
290
bed narrowPeak
264
tsv
235
fastq
108
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
751
Homo sapiens
Biosample type
2763
tissue
751
primary cell
636
cell line
377
in vitro differentiated cells
8
stem cell
Organ
250
epithelium
190
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
554
AMP
196
T1D
1
ITG
Genome assembly (visualization)
620
hg19
521
GRCh38
Lab
519
AMP-T2D consortium
Klaus Kaestner, Upenn
231
Kyle Gaulton, UCSD
1
ITG
Audit category:
54
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
month_released!
January, 2021
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
751 results
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ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
85
54
15
1
1
CD8-positive, alpha-beta T cell
33
4
2
1
pancreatic beta cell
11
10
7
12
pancreatic alpha cell
11
10
6
12
pancreatic ductal cell
13
4
4
10
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