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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
162
ChIP-seq
151
ATAC-seq
31
DNase-seq
10
RRBS
6
Hi-C
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
183
DNA accessibility
162
DNA binding
Transcription
11
DNA methylation
6
3D chromatin structure
Target of assay
123
histone
123
histone modification
65
narrow histone mark
58
broad histone mark
29
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
100
May, 2020
59
August, 2017
55
June, 2019
46
September, 2018
32
October, 2019
18
May, 2021
13
July, 2019
12
February, 2023
9
November, 2017
5
May, 2019
5
September, 2017
4
August, 2021
2
February, 2021
2
November, 2020
1
March, 2020
Available data
273
bam
232
bigWig
181
bed narrowPeak
118
fastq
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
12
tsv
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
363
Homo sapiens
Biosample type
1357
tissue
511
cell line
363
primary cell
207
in vitro differentiated cells
8
stem cell
Organ
144
epithelium
92
pancreas
35
vasculature
30
kidney
29
blood vessel
23
connective tissue
22
vein
18
brain
12
musculature of body
9
heart
9
liver
5
eye
Project
363
AMP
Genome assembly (visualization)
254
hg19
189
GRCh38
Lab
363
AMP-T2D consortium
147
Klaus Kaestner, Upenn
141
Kyle Gaulton, UCSD
1
ITG
0
Xin Sun, UCSD
Audit category:
42
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!
Struan F.A. Grant, CHOP
BIOSAMPLE
ASSAY
363 results
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ChIP-seq
ATAC-seq
DNase-seq
RRBS
Hi-C
DNAme array
FAIRE-seq
pCHi-C
primary cell
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
pancreatic endocrine cell
23
CD4-positive, alpha-beta memory T cell
22
endothelial cell of umbilical vein
17
2
2
1
pancreatic beta cell
13
7
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