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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
108
ChIP-seq
56
snATAC-seq
47
WGBS
31
DNase-seq
17
pCHi-C
10
Hi-C
10
RRBS
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
Assay category
436
Transcription
288
DNA accessibility
108
DNA binding
58
DNA methylation
10
3D chromatin structure
Target of assay
139
histone
139
histone modification
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
100
May, 2021
88
February, 2023
59
September, 2020
56
September, 2018
48
February, 2021
48
July, 2018
47
June, 2019
43
April, 2018
37
August, 2017
31
July, 2019
22
October, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
3
August, 2018
3
June, 2018
3
May, 2019
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
tagAlign
41
bed broadPeak
41
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
917
Homo sapiens
Biosample type
2292
tissue
917
primary cell
629
cell line
312
in vitro differentiated cells
9
stem cell
Organ
372
epithelium
319
pancreas
35
connective tissue
31
kidney
28
vasculature
22
blood vessel
21
brain
13
heart
13
vein
10
liver
10
musculature of body
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
472
AMP
324
HPAP
120
T1D
1
ITG
Genome assembly (visualization)
462
hg19
393
GRCh38
Lab
457
AMP-T2D consortium
324
Klaus Kaestner, Upenn
135
Kyle Gaulton, UCSD
1
ITG
Audit category:
46
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
files.file_type!
tagAlign
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
917 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
Hi-C
RRBS
small RNA-seq
DNAme array
FAIRE-seq
primary cell
pancreatic alpha cell
52
35
12
10
31
1
Langerhans cell
85
48
pancreatic beta cell
21
23
12
10
16
1
monocyte
54
15
1
1
1
exocrine cell
39
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