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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
128
ATAC-seq
117
single cell RNA-seq
103
ChIP-seq
58
total RNA-seq
48
snATAC-seq
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
189
DNA accessibility
177
Transcription
103
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
87
histone
87
histone modification
47
broad histone mark
40
narrow histone mark
14
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
55
May, 2021
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
30
August, 2017
18
July, 2019
15
July, 2018
12
September, 2018
10
April, 2018
6
November, 2020
3
November, 2017
2
June, 2018
1
March, 2023
1
November, 2018
1
October, 2019
Available data
202
bigWig
187
bam
171
fastq
105
bed narrowPeak
73
zippedFastqFolder
58
tsv
48
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
16
bed bed3+
12
tagAlign
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
478
Homo sapiens
Biosample type
2691
tissue
578
cell line
478
primary cell
370
in vitro differentiated cells
10
stem cell
Organ
epithelium
346
pancreas
38
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
pericardium
Project
305
AMP
T1D
172
HPAP
1
ITG
Genome assembly (visualization)
221
hg19
131
GRCh38
Lab
270
AMP-T2D consortium
172
Klaus Kaestner, Upenn
35
Kyle Gaulton, UCSD
1
ITG
Audit category:
39
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
award.project!
T1D
organ_slims!
epithelium
BIOSAMPLE
ASSAY
478 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
DNase-seq
RRBS
Hi-C
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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