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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
117
ATAC-seq
111
single cell RNA-seq
84
ChIP-seq
58
total RNA-seq
48
snATAC-seq
11
DNase-seq
3
Hi-C
3
RRBS
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
176
DNA accessibility
171
Transcription
84
DNA binding
4
DNA methylation
3
3D chromatin structure
Target of assay
72
histone
72
histone modification
39
broad histone mark
33
narrow histone mark
11
control
4
RNA binding protein
4
transcription factor
1
chromatin remodeller
Date released
98
May, 2020
55
May, 2021
54
May, 2022
45
February, 2023
42
February, 2021
40
September, 2020
30
August, 2017
17
July, 2019
14
June, 2019
12
September, 2018
10
April, 2018
10
July, 2018
6
November, 2020
3
November, 2017
1
June, 2018
1
March, 2023
1
November, 2018
Available data
174
bigWig
165
fastq
155
bam
86
bed narrowPeak
73
zippedFastqFolder
46
tsv
30
bigBed narrowPeak
25
bed broadPeak
25
bigBed broadPeak
14
bed bed3+
12
tagAlign
3
bed bedMethyl
3
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
439
Homo sapiens
Biosample type
2640
tissue
562
cell line
439
primary cell
260
in vitro differentiated cells
9
stem cell
Organ
epithelium
341
pancreas
36
vasculature
31
blood vessel
28
kidney
25
connective tissue
22
vein
21
brain
13
liver
7
heart
6
musculature of body
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
266
AMP
T1D
172
HPAP
1
ITG
Genome assembly (visualization)
191
hg19
106
GRCh38
Lab
231
AMP-T2D consortium
172
Klaus Kaestner, Upenn
35
Kyle Gaulton, UCSD
1
ITG
Audit category:
inconsistent ontology term
27
audit script error
Audit category:
23
missing controlled_by
Audit category:
2
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
award.project!
T1D
organ_slims!
epithelium
BIOSAMPLE
ASSAY
439 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
DNase-seq
Hi-C
RRBS
small RNA-seq
DNAme array
pCHi-C
primary cell
Langerhans cell
85
48
exocrine cell
39
CD8-positive, alpha-beta T cell
2
33
2
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
pancreatic endocrine cell
23
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