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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
186
ChIP-seq
116
ATAC-seq
87
single cell RNA-seq
56
snATAC-seq
42
total RNA-seq
16
pCHi-C
4
RRBS
2
DNase-seq
1
DNAme array
1
Hi-C
Assay category
186
DNA binding
174
DNA accessibility
129
Transcription
5
DNA methylation
1
3D chromatin structure
Target of assay
170
histone
170
histone modification
91
broad histone mark
79
narrow histone mark
11
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
152
May, 2021
102
May, 2020
54
May, 2022
40
February, 2021
40
September, 2020
39
February, 2023
29
August, 2017
25
June, 2019
12
September, 2018
8
January, 2021
3
July, 2019
3
November, 2017
1
March, 2023
1
November, 2018
1
November, 2020
1
October, 2019
Available data
381
bigWig
366
bam
188
bed narrowPeak
170
fastq
tsv
96
tagAlign
73
zippedFastqFolder
47
bigBed narrowPeak
27
bed broadPeak
27
bigBed broadPeak
bed bed3+
4
bed bedMethyl
4
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
511
Homo sapiens
Biosample type
1478
tissue
511
primary cell
470
cell line
208
in vitro differentiated cells
3
stem cell
Organ
epithelium
234
pancreas
27
vasculature
23
blood vessel
20
kidney
20
vein
16
connective tissue
11
musculature of body
10
brain
8
blood
8
bodily fluid
6
heart
4
eye
3
liver
1
bone element
1
bone marrow
Project
230
AMP
172
HPAP
108
T1D
1
ITG
Genome assembly (visualization)
243
hg19
157
GRCh38
Lab
197
AMP-T2D consortium
172
Klaus Kaestner, Upenn
141
Kyle Gaulton, UCSD
1
ITG
Audit category:
27
audit script error
26
inconsistent ontology term
Audit category:
23
missing controlled_by
Audit category:
2
inconsistent assembly
inconsistent control read length
1
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
files.file_type!
bed bed3+
tsv
organ_slims!
epithelium
BIOSAMPLE
ASSAY
511 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
total RNA-seq
pCHi-C
RRBS
DNase-seq
DNAme array
Hi-C
primary cell
Langerhans cell
85
48
monocyte
85
15
1
1
1
exocrine cell
39
CD8-positive, alpha-beta T cell
33
2
1
naive thymus-derived CD4-positive, alpha-beta T cell
2
22
1
1
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