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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
245
total RNA-seq
200
ATAC-seq
187
single cell RNA-seq
108
ChIP-seq
56
snATAC-seq
47
WGBS
16
pCHi-C
10
RRBS
6
Hi-C
4
DNase-seq
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
434
Transcription
261
DNA accessibility
108
DNA binding
58
DNA methylation
6
3D chromatin structure
Target of assay
139
histone
139
histone modification
broad histone mark
68
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
134
May, 2022
98
May, 2021
88
February, 2023
59
September, 2020
56
September, 2018
48
July, 2018
47
February, 2021
43
April, 2018
37
August, 2017
27
July, 2019
23
June, 2019
20
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
5
December, 2019
5
November, 2020
5
September, 2017
3
August, 2018
3
June, 2018
3
May, 2019
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
509
bam
495
bigWig
376
fastq
270
tsv
183
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
tagAlign
41
bed broadPeak
41
bigBed broadPeak
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
883
Homo sapiens
Biosample type
2088
tissue
883
primary cell
626
cell line
291
in vitro differentiated cells
7
stem cell
Organ
354
epithelium
319
pancreas
27
connective tissue
21
kidney
20
vasculature
16
blood vessel
13
brain
11
vein
10
heart
9
musculature of body
8
blood
8
bodily fluid
7
liver
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
438
AMP
324
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
435
hg19
366
GRCh38
Lab
425
AMP-T2D consortium
324
Klaus Kaestner, Upenn
133
Kyle Gaulton, UCSD
1
ITG
Audit category:
43
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
files.file_type!
bed bed3+
tagAlign
organ_slims!
nerve
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
883 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
pCHi-C
RRBS
Hi-C
DNase-seq
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
31
1
Langerhans cell
85
48
pancreatic beta cell
21
23
12
10
16
1
monocyte
54
15
1
1
1
exocrine cell
39
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