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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
188
ATAC-seq
162
ChIP-seq
95
total RNA-seq
87
single cell RNA-seq
48
snATAC-seq
31
DNase-seq
10
Hi-C
1
FAIRE-seq
1
pCHi-C
Assay category
268
DNA accessibility
182
Transcription
162
DNA binding
DNA methylation
10
3D chromatin structure
Target of assay
123
histone
123
histone modification
65
narrow histone mark
58
broad histone mark
29
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
93
May, 2022
76
February, 2023
59
September, 2020
58
August, 2017
55
June, 2019
47
September, 2018
41
February, 2021
32
October, 2019
18
May, 2021
9
November, 2017
7
August, 2020
5
May, 2019
5
September, 2017
4
August, 2021
4
July, 2019
3
October, 2022
2
November, 2020
1
March, 2020
1
March, 2023
1
November, 2018
Available data
429
bam
402
fastq
398
bigWig
181
bed narrowPeak
tsv
112
zippedFastqFolder
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
16
tagAlign
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
623
Homo sapiens
Biosample type
1571
tissue
623
primary cell
537
cell line
216
in vitro differentiated cells
6
stem cell
Organ
243
epithelium
197
pancreas
34
vasculature
29
blood vessel
27
kidney
22
connective tissue
22
vein
17
brain
11
musculature of body
8
heart
8
liver
4
eye
Project
345
AMP
277
HPAP
1
ITG
Genome assembly (visualization)
247
hg19
200
GRCh38
Lab
345
AMP-T2D consortium
277
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
34
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
files.file_type!
tsv
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
623 results
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ATAC-seq
ChIP-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
DNase-seq
Hi-C
FAIRE-seq
pCHi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
35
13
42
1
pancreatic beta cell
23
13
11
1
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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