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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
151
ATAC-seq
31
DNase-seq
17
pCHi-C
10
RRBS
8
snATAC-seq
7
Hi-C
1
DNAme array
1
FAIRE-seq
Assay category
279
DNA binding
Transcription
191
DNA accessibility
11
DNA methylation
7
3D chromatin structure
Target of assay
237
histone
237
histone modification
122
broad histone mark
115
narrow histone mark
32
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
46
September, 2018
32
October, 2019
13
July, 2019
12
February, 2023
9
November, 2017
8
January, 2021
5
May, 2019
5
September, 2017
4
August, 2021
2
February, 2021
2
November, 2020
1
March, 2020
1
March, 2023
Available data
357
bam
349
bigWig
295
bed narrowPeak
118
fastq
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
12
tsv
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
505
Homo sapiens
Biosample type
1510
tissue
547
cell line
505
primary cell
256
in vitro differentiated cells
8
stem cell
Organ
144
epithelium
92
pancreas
35
vasculature
30
kidney
29
blood vessel
24
connective tissue
22
vein
18
brain
12
musculature of body
9
heart
9
liver
8
blood
8
bodily fluid
5
eye
1
bone element
1
bone marrow
Project
396
AMP
108
T1D
1
ITG
Genome assembly (visualization)
371
hg19
274
GRCh38
Lab
363
AMP-T2D consortium
Klaus Kaestner, Upenn
141
Kyle Gaulton, UCSD
1
ITG
Audit category:
43
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!
Transcription
lab.title!
Klaus Kaestner, Upenn
BIOSAMPLE
ASSAY
505 results
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ChIP-seq
ATAC-seq
DNase-seq
pCHi-C
RRBS
snATAC-seq
Hi-C
DNAme array
FAIRE-seq
primary cell
monocyte
85
15
1
1
CD8-positive, alpha-beta T cell
33
2
1
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
1
pancreatic endocrine cell
23
CD4-positive, alpha-beta memory T cell
22
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