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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
267
ChIP-seq
149
ATAC-seq
145
total RNA-seq
98
single cell RNA-seq
25
DNase-seq
15
pCHi-C
9
RRBS
6
Hi-C
1
DNAme array
1
FAIRE-seq
1
small RNA-seq
Assay category
267
DNA binding
244
Transcription
175
DNA accessibility
10
DNA methylation
6
3D chromatin structure
Target of assay
229
histone
229
histone modification
118
broad histone mark
111
narrow histone mark
32
control
9
RNA binding protein
9
transcription factor
1
chromatin remodeller
Date released
205
May, 2021
147
May, 2020
73
September, 2018
59
August, 2017
46
July, 2018
41
April, 2018
38
June, 2019
34
October, 2019
23
July, 2019
12
February, 2023
9
November, 2017
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
573
bam
571
bigWig
278
bed narrowPeak
249
tsv
237
fastq
100
tagAlign
94
bigBed narrowPeak
43
bed broadPeak
43
bigBed broadPeak
29
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
3
hdf5
3
hic
2
csv
1
bedpe bed3+
1
tar
Organism
717
Homo sapiens
Biosample type
2230
tissue
717
primary cell
601
cell line
297
in vitro differentiated cells
9
stem cell
Organ
254
epithelium
194
pancreas
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
13
heart
8
blood
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
521
AMP
195
T1D
1
ITG
Genome assembly (visualization)
591
hg19
494
GRCh38
Lab
486
AMP-T2D consortium
Klaus Kaestner, Upenn
230
Kyle Gaulton, UCSD
1
ITG
Audit category:
41
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
lab.title!
Klaus Kaestner, Upenn
organ_slims!
bodily fluid
connective tissue
BIOSAMPLE
ASSAY
717 results
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ChIP-seq
ATAC-seq
total RNA-seq
single cell RNA-seq
DNase-seq
pCHi-C
RRBS
Hi-C
DNAme array
FAIRE-seq
small RNA-seq
primary cell
monocyte
85
15
54
1
1
pancreatic beta cell
13
7
10
12
pancreatic alpha cell
13
6
10
12
CD8-positive, alpha-beta T cell
33
2
4
1
pancreatic ductal cell
13
4
4
10
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