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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
179
ChIP-seq
56
snATAC-seq
47
WGBS
15
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
179
DNA binding
58
DNA methylation
6
3D chromatin structure
Target of assay
139
histone
139
histone modification
71
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
119
May, 2021
88
February, 2023
73
September, 2018
59
September, 2020
48
July, 2018
47
August, 2017
47
February, 2021
43
April, 2018
32
October, 2019
31
June, 2019
27
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
November, 2020
5
September, 2017
3
August, 2018
3
June, 2018
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
613
bigWig
609
bam
409
fastq
295
bed narrowPeak
270
tsv
153
zippedFastqFolder
109
bigBed narrowPeak
tagAlign
49
bed broadPeak
49
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
953
Homo sapiens
Biosample type
2176
tissue
953
primary cell
639
cell line
329
in vitro differentiated cells
7
stem cell
Organ
384
epithelium
346
pancreas
31
connective tissue
29
vasculature
26
kidney
25
blood vessel
20
vein
13
brain
13
musculature of body
10
heart
8
blood
8
bodily fluid
7
liver
4
eye
2
adipose tissue
2
artery
bone element
1
bone marrow
1
pericardium
Project
509
AMP
324
HPAP
119
T1D
1
ITG
Genome assembly (visualization)
502
hg19
411
GRCh38
Lab
476
AMP-T2D consortium
324
Klaus Kaestner, Upenn
152
Kyle Gaulton, UCSD
1
ITG
Audit category:
51
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
files.file_type!
tagAlign
bed bed3+
organ_slims!
bone element
BIOSAMPLE
ASSAY
953 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
13
31
1
Langerhans cell
85
48
pancreatic beta cell
21
23
12
13
16
1
monocyte
54
15
1
1
1
exocrine cell
39
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