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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
187
single cell RNA-seq
134
ChIP-seq
snATAC-seq
47
WGBS
17
pCHi-C
10
Hi-C
10
RRBS
7
DNase-seq
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
208
DNA accessibility
134
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
218
histone
218
histone modification
broad histone mark
104
narrow histone mark
27
control
6
RNA binding protein
6
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
140
May, 2021
113
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
July, 2018
June, 2019
43
April, 2018
43
August, 2017
31
July, 2019
22
October, 2019
21
February, 2021
9
November, 2017
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
462
bam
456
bigWig
349
fastq
270
tsv
144
bed narrowPeak
132
zippedFastqFolder
49
bigBed narrowPeak
49
tagAlign
17
bed broadPeak
17
bigBed broadPeak
12
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
863
Homo sapiens
Biosample type
2283
tissue
863
primary cell
642
cell line
338
in vitro differentiated cells
9
stem cell
Organ
355
epithelium
319
pancreas
24
vasculature
22
connective tissue
20
blood vessel
18
kidney
16
brain
13
vein
11
liver
5
heart
3
musculature of body
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
eye
1
pericardium
Project
434
AMP
276
HPAP
152
T1D
1
ITG
Genome assembly (visualization)
478
hg19
401
GRCh38
Lab
419
AMP-T2D consortium
276
Klaus Kaestner, Upenn
167
Kyle Gaulton, UCSD
1
ITG
Audit category:
29
inconsistent ontology term
4
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
assay_title!
snATAC-seq
audit.ERROR.category!
inconsistent replicate
month_released!
June, 2019
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
863 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
pCHi-C
Hi-C
RRBS
DNase-seq
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
31
1
monocyte
54
15
41
1
1
Langerhans cell
85
pancreatic beta cell
21
23
12
10
16
1
exocrine cell
39
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