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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
235
ChIP-seq
200
ATAC-seq
187
single cell RNA-seq
47
WGBS
31
DNase-seq
29
snATAC-seq
17
pCHi-C
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
261
DNA accessibility
235
DNA binding
58
DNA methylation
6
3D chromatin structure
Target of assay
193
histone
193
histone modification
101
broad histone mark
92
narrow histone mark
35
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
59
September, 2020
55
June, 2019
48
July, 2018
47
August, 2017
43
April, 2018
41
September, 2018
33
October, 2019
31
July, 2019
21
February, 2021
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
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
569
bigWig
565
bam
338
fastq
270
tsv
263
bed narrowPeak
153
zippedFastqFolder
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
1013
Homo sapiens
Biosample type
2723
tissue
1013
primary cell
649
cell line
386
in vitro differentiated cells
10
stem cell
Organ
381
epithelium
299
pancreas
39
connective tissue
36
kidney
36
vasculature
30
blood vessel
21
brain
21
vein
14
liver
14
musculature of body
13
heart
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
514
AMP
294
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
580
hg19
492
GRCh38
Lab
479
AMP-T2D consortium
294
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
54
inconsistent ontology term
audit script error
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
audit script error
audit.NOT_COMPLIANT.category!
missing controlled_by
lab.title!
Xin Sun, UCSD
BIOSAMPLE
ASSAY
1013 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
WGBS
DNase-seq
snATAC-seq
pCHi-C
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
Langerhans cell
85
21
pancreatic beta cell
21
13
23
12
16
CD8-positive, alpha-beta T cell
4
33
2
1
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