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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
128
ATAC-seq
117
single cell RNA-seq
70
ChIP-seq
56
total RNA-seq
48
snATAC-seq
13
DNase-seq
4
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
189
DNA accessibility
175
Transcription
70
DNA binding
5
DNA methylation
3
3D chromatin structure
Target of assay
57
histone
57
histone modification
30
narrow histone mark
27
broad histone mark
11
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
54
May, 2022
51
February, 2023
42
February, 2021
40
September, 2020
35
June, 2019
30
August, 2017
20
May, 2021
18
July, 2019
15
July, 2018
12
September, 2018
10
April, 2018
6
November, 2020
3
November, 2017
2
June, 2018
1
March, 2023
1
November, 2018
1
October, 2019
Available data
187
bam
171
fastq
167
bigWig
75
bed narrowPeak
73
zippedFastqFolder
58
tsv
48
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
14
bed bed3+
12
tagAlign
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
443
Homo sapiens
Biosample type
2700
tissue
577
cell line
443
primary cell
316
in vitro differentiated cells
10
stem cell
Organ
epithelium
343
pancreas
38
connective tissue
36
kidney
36
vasculature
30
blood vessel
21
brain
21
vein
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
270
AMP
172
HPAP
1
ITG
Genome assembly (visualization)
186
hg19
131
GRCh38
Lab
270
AMP-T2D consortium
Kyle Gaulton, UCSD
172
Klaus Kaestner, Upenn
1
ITG
Audit category:
39
inconsistent ontology term
27
audit script error
Audit category:
23
missing controlled_by
Audit category:
2
inconsistent assembly
1
inconsistent control read length
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
files.file_type!
bedpe bed3+
organ_slims!
epithelium
BIOSAMPLE
ASSAY
443 results
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ATAC-seq
single cell RNA-seq
ChIP-seq
total RNA-seq
snATAC-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
pCHi-C
primary cell
Langerhans cell
85
48
exocrine cell
39
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
pancreatic endocrine cell
23
CD4-positive, alpha-beta memory T cell
22
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