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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
144
ChIP-seq
56
snATAC-seq
47
WGBS
17
pCHi-C
10
Hi-C
10
RRBS
3
DNase-seq
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
260
DNA accessibility
144
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
221
histone
221
histone modification
broad histone mark
107
narrow histone mark
35
control
5
RNA binding protein
5
transcription factor
Date released
147
May, 2020
140
May, 2021
134
May, 2022
88
February, 2023
59
September, 2020
56
September, 2018
48
February, 2021
48
July, 2018
43
April, 2018
35
August, 2017
31
July, 2019
23
June, 2019
20
October, 2019
8
January, 2021
7
August, 2020
5
December, 2019
5
November, 2020
5
September, 2017
3
August, 2018
3
August, 2021
3
June, 2018
3
May, 2019
3
November, 2017
3
October, 2022
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
509
bam
495
bigWig
376
fastq
270
tsv
183
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
49
tagAlign
41
bed broadPeak
bigBed broadPeak
36
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
925
Homo sapiens
Biosample type
2278
tissue
925
primary cell
592
cell line
337
in vitro differentiated cells
9
stem cell
Organ
355
epithelium
319
pancreas
29
connective tissue
21
kidney
18
vasculature
16
blood vessel
11
liver
11
vein
10
brain
10
heart
9
musculature of body
8
blood
8
bodily fluid
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
440
AMP
324
HPAP
160
T1D
1
ITG
Genome assembly (visualization)
476
hg19
401
GRCh38
Lab
425
AMP-T2D consortium
324
Klaus Kaestner, Upenn
175
Kyle Gaulton, UCSD
1
ITG
Audit category:
43
inconsistent ontology term
31
audit script error
Audit category:
23
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
target.investigated_as!
broad histone mark
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
925 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-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
Langerhans cell
85
48
monocyte
54
15
41
1
1
pancreatic beta cell
21
23
12
10
16
1
exocrine cell
39
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