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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
265
ChIP-seq
240
total RNA-seq
199
ATAC-seq
187
single cell RNA-seq
47
WGBS
29
DNase-seq
29
snATAC-seq
17
pCHi-C
9
RRBS
5
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
429
Transcription
265
DNA binding
258
DNA accessibility
57
DNA methylation
5
3D chromatin structure
Target of assay
234
histone
234
histone modification
121
broad histone mark
113
narrow histone mark
34
control
10
RNA binding protein
transcription factor
1
chromatin remodeller
Date released
206
May, 2021
147
May, 2020
134
May, 2022
88
February, 2023
73
September, 2018
59
September, 2020
57
August, 2017
49
June, 2019
48
July, 2018
43
April, 2018
32
October, 2019
27
July, 2019
21
February, 2021
8
January, 2021
7
August, 2020
6
November, 2017
6
November, 2020
5
September, 2017
4
May, 2019
3
August, 2018
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
590
bigWig
585
bam
377
fastq
279
bed narrowPeak
263
tsv
153
zippedFastqFolder
97
bigBed narrowPeak
96
tagAlign
42
bed broadPeak
42
bigBed broadPeak
31
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
3
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
1031
Homo sapiens
Biosample type
2280
tissue
1031
primary cell
330
in vitro differentiated cells
135
cell line
10
stem cell
Organ
397
epithelium
343
pancreas
38
connective tissue
34
kidney
34
vasculature
29
blood vessel
21
vein
18
brain
liver
14
musculature of body
12
heart
8
blood
8
bodily fluid
4
eye
2
adipose tissue
artery
1
bone element
1
bone marrow
1
pericardium
Project
532
AMP
294
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
599
hg19
514
GRCh38
Lab
497
AMP-T2D consortium
294
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
50
inconsistent ontology term
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
audit script error
organ_slims!
artery
liver
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
1031 results
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ChIP-seq
total RNA-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
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
Langerhans cell
85
21
pancreatic beta cell
13
21
23
12
16
CD8-positive, alpha-beta T cell
33
4
2
1
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