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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
115
single cell RNA-seq
70
ChIP-seq
56
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
173
Transcription
70
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
57
histone
57
histone modification
30
narrow histone mark
27
broad histone mark
11
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
30
August, 2017
20
May, 2021
18
July, 2019
15
July, 2018
11
September, 2018
10
April, 2018
6
November, 2020
3
November, 2017
2
June, 2018
1
March, 2023
1
October, 2019
Available data
187
bam
171
fastq
167
bigWig
75
bed narrowPeak
73
zippedFastqFolder
58
tsv
48
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
14
bed bed3+
12
tagAlign
4
bed bedMethyl
4
bigBed bedMethyl
csv
2
hdf5
1
bed bed3
1
hic
Organism
441
Homo sapiens
Biosample type
2704
tissue
578
cell line
441
primary cell
323
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
268
AMP
172
HPAP
1
ITG
Genome assembly (visualization)
186
hg19
131
GRCh38
Lab
268
AMP-T2D consortium
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
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
files.file_type!
csv
lab.title!
Kyle Gaulton, UCSD
organ_slims!
epithelium
BIOSAMPLE
ASSAY
441 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
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
pancreatic endocrine cell
23
CD4-positive, alpha-beta memory T cell
22
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