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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
221
total RNA-seq
186
ATAC-seq
186
single cell RNA-seq
141
ChIP-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
RRBS
9
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
409
Transcription
274
DNA accessibility
141
DNA binding
58
DNA methylation
9
3D chromatin structure
Target of assay
203
histone
203
histone modification
broad histone mark
99
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
September, 2018
48
February, 2021
48
July, 2018
47
June, 2019
43
April, 2018
42
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
March, 2023
1
November, 2018
Available data
453
bam
439
bigWig
319
fastq
244
tsv
153
bed narrowPeak
153
zippedFastqFolder
73
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
41
bigBed broadPeak
36
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
csv
1
tar
Organism
908
Homo sapiens
Biosample type
2474
tissue
908
primary cell
640
cell line
338
in vitro differentiated cells
7
stem cell
Organ
324
epithelium
264
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
424
AMP
324
HPAP
160
T1D
Genome assembly (visualization)
454
hg19
383
GRCh38
Lab
409
AMP-T2D consortium
324
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
Audit category:
46
inconsistent ontology term
31
audit script error
Audit category:
8
missing controlled_by
Audit category:
5
inconsistent control read length
inconsistent assembly
1
inconsistent control run_type
audit.WARNING.category!
inconsistent assembly
month_released!
March, 2023
September, 2018
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
908 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
32
12
10
31
1
monocyte
54
15
41
1
1
pancreatic beta cell
11
19
12
10
16
1
exocrine cell
39
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