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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
154
total RNA-seq
128
ATAC-seq
117
single cell RNA-seq
56
snATAC-seq
17
pCHi-C
16
ChIP-seq
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
Assay category
273
Transcription
197
DNA accessibility
16
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
171
histone
histone modification
91
broad histone mark
80
narrow histone mark
14
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
88
May, 2021
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
18
July, 2019
18
June, 2019
15
July, 2018
10
April, 2018
8
January, 2021
6
August, 2017
6
November, 2020
2
June, 2018
2
November, 2017
1
March, 2023
1
November, 2018
1
October, 2019
1
September, 2018
Available data
230
bam
215
bigWig
154
tsv
135
fastq
73
zippedFastqFolder
34
bed narrowPeak
18
bigBed narrowPeak
16
bed bed3+
15
bed broadPeak
15
bigBed broadPeak
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
1
tagAlign
Organism
511
Homo sapiens
Biosample type
2129
tissue
557
cell line
511
primary cell
273
in vitro differentiated cells
8
stem cell
Organ
epithelium
288
pancreas
31
connective tissue
26
kidney
20
vasculature
18
brain
15
blood vessel
11
heart
11
liver
8
blood
8
bodily fluid
7
vein
6
musculature of body
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
218
AMP
172
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
234
hg19
174
GRCh38
Lab
213
AMP-T2D consortium
172
Klaus Kaestner, Upenn
125
Kyle Gaulton, UCSD
1
ITG
Audit category:
29
inconsistent ontology term
27
audit script error
organ_slims!
epithelium
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
511 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
pCHi-C
ChIP-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
primary cell
Langerhans cell
85
48
monocyte
54
15
1
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
1
CD4-positive, alpha-beta memory T cell
22
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