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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
96
ChIP-seq
56
snATAC-seq
17
pCHi-C
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
Assay category
273
Transcription
197
DNA accessibility
96
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
171
histone
171
histone modification
broad histone mark
80
narrow histone mark
14
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
27
June, 2019
20
August, 2017
18
July, 2019
15
July, 2018
10
April, 2018
8
January, 2021
6
November, 2020
5
September, 2018
3
November, 2017
2
June, 2018
1
March, 2023
1
November, 2018
1
October, 2019
Available data
298
bam
293
bigWig
154
fastq
154
tsv
104
bed narrowPeak
73
zippedFastqFolder
46
tagAlign
34
bigBed narrowPeak
21
bed broadPeak
21
bigBed broadPeak
16
bed bed3+
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
591
Homo sapiens
Biosample type
2458
tissue
591
primary cell
570
cell line
321
in vitro differentiated cells
9
stem cell
Organ
epithelium
319
pancreas
35
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
liver
13
vein
10
musculature of body
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
258
AMP
172
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
312
hg19
242
GRCh38
Lab
243
AMP-T2D consortium
175
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
1
ITG
Audit category:
36
inconsistent ontology term
27
audit script error
Audit category:
12
missing controlled_by
Audit category:
1
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
lab.title!
Maike Sander, UCSD
target.investigated_as!
broad histone mark
organ_slims!
epithelium
BIOSAMPLE
ASSAY
591 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
pCHi-C
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
primary cell
Langerhans cell
85
48
monocyte
54
15
41
1
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
1
1
CD4-positive, alpha-beta memory T cell
22
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