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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
243
total RNA-seq
230
ChIP-seq
200
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
47
WGBS
28
DNase-seq
17
pCHi-C
10
Hi-C
9
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
432
Transcription
285
DNA accessibility
230
DNA binding
57
DNA methylation
10
3D chromatin structure
Target of assay
191
histone
191
histone modification
101
broad histone mark
90
narrow histone mark
33
control
9
RNA binding protein
9
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
59
September, 2020
48
February, 2021
48
July, 2018
47
August, 2017
47
June, 2019
43
April, 2018
41
September, 2018
34
October, 2019
26
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
559
bigWig
553
bam
365
fastq
266
tsv
257
bed narrowPeak
153
zippedFastqFolder
103
bigBed narrowPeak
100
tagAlign
46
bed broadPeak
46
bigBed broadPeak
34
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
1031
Homo sapiens
Biosample type
2438
tissue
1031
primary cell
583
cell line
385
in vitro differentiated cells
10
stem cell
Organ
385
epithelium
302
pancreas
39
connective tissue
37
vasculature
36
kidney
31
blood vessel
22
vein
21
brain
14
liver
14
musculature of body
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
502
AMP
324
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
574
hg19
482
GRCh38
Lab
467
AMP-T2D consortium
324
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
48
inconsistent ontology term
31
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
files.file_type!
ibed
organ_slims!
heart
BIOSAMPLE
ASSAY
1031 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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