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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
166
total RNA-seq
129
ATAC-seq
113
single cell RNA-seq
108
ChIP-seq
56
snATAC-seq
31
DNase-seq
17
pCHi-C
10
RRBS
7
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
281
Transcription
217
DNA accessibility
108
DNA binding
11
DNA methylation
7
3D chromatin structure
Target of assay
80
histone
80
histone modification
44
broad histone mark
36
narrow histone mark
21
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
122
May, 2021
55
June, 2019
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
34
October, 2019
31
July, 2019
11
July, 2018
10
April, 2018
9
November, 2017
8
January, 2021
6
November, 2020
5
August, 2017
5
December, 2019
5
May, 2019
2
June, 2018
1
March, 2020
1
March, 2023
1
November, 2018
1
September, 2018
Available data
420
bigWig
414
bam
226
bed narrowPeak
162
tsv
150
fastq
tagAlign
86
bigBed narrowPeak
73
zippedFastqFolder
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
3
hic
2
csv
1
bed bed3
1
bedpe bed3+
1
tar
Organism
641
Homo sapiens
Biosample type
2049
tissue
641
primary cell
535
cell line
337
in vitro differentiated cells
8
stem cell
Organ
398
epithelium
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
musculature of body
13
heart
10
liver
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
348
AMP
172
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
343
hg19
245
GRCh38
Lab
313
AMP-T2D consortium
172
Klaus Kaestner, Upenn
155
Kyle Gaulton, UCSD
1
ITG
Audit category:
49
inconsistent ontology term
28
audit script error
Audit category:
1
inconsistent assembly
inconsistent control read length
1
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
files.file_type!
tagAlign
organ_slims!
pancreas
BIOSAMPLE
ASSAY
641 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
monocyte
54
15
1
1
1
CD8-positive, alpha-beta T cell
4
2
33
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
1
22
2
1
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