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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
200
ATAC-seq
157
ChIP-seq
139
single cell RNA-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
388
Transcription
288
DNA accessibility
157
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
237
histone
237
histone modification
broad histone mark
115
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
134
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
February, 2021
July, 2018
47
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
22
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
461
bam
447
bigWig
328
fastq
222
tsv
183
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
918
Homo sapiens
Biosample type
2334
tissue
918
primary cell
643
cell line
338
in vitro differentiated cells
9
stem cell
Organ
342
epithelium
282
pancreas
33
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
433
AMP
324
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
462
hg19
392
GRCh38
Lab
418
AMP-T2D consortium
324
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
40
inconsistent ontology term
31
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
target.investigated_as!
broad histone mark
month_released!
July, 2018
BIOSAMPLE
ASSAY
918 results
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total RNA-seq
ATAC-seq
ChIP-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
10
5
31
1
Langerhans cell
85
48
monocyte
54
15
41
1
1
pancreatic beta cell
21
23
10
3
16
1
exocrine cell
39
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