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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
247
total RNA-seq
193
ATAC-seq
187
single cell RNA-seq
179
ChIP-seq
56
snATAC-seq
31
DNase-seq
17
pCHi-C
10
Hi-C
2
small RNA-seq
1
FAIRE-seq
Assay category
436
Transcription
281
DNA accessibility
179
DNA binding
DNA methylation
10
3D chromatin structure
Target of assay
139
histone
139
histone modification
71
broad histone mark
68
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
121
May, 2021
93
May, 2022
88
February, 2023
73
September, 2018
59
September, 2020
55
June, 2019
48
July, 2018
46
August, 2017
43
April, 2018
42
February, 2021
34
October, 2019
22
July, 2019
9
November, 2017
8
January, 2021
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
609
bam
606
bigWig
395
fastq
295
bed narrowPeak
264
tsv
112
zippedFastqFolder
109
bigBed narrowPeak
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
923
Homo sapiens
Biosample type
2500
tissue
923
primary cell
641
cell line
354
in vitro differentiated cells
10
stem cell
Organ
342
epithelium
292
pancreas
38
connective tissue
36
vasculature
33
kidney
31
blood vessel
22
vein
20
brain
13
musculature of body
12
heart
9
liver
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
532
AMP
270
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
519
hg19
431
GRCh38
Lab
497
AMP-T2D consortium
270
Klaus Kaestner, Upenn
155
Kyle Gaulton, UCSD
1
ITG
Audit category:
52
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_slims!
DNA methylation
files.file_type!
tagAlign
month_released!
August, 2020
organ_slims!
lymph node
BIOSAMPLE
ASSAY
923 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
small RNA-seq
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
52
30
12
13
1
monocyte
54
15
1
1
pancreatic beta cell
21
21
12
13
1
CD8-positive, alpha-beta T cell
4
2
33
1
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