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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
104
total RNA-seq
88
ChIP-seq
19
ATAC-seq
6
pCHi-C
3
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
Assay category
104
Transcription
88
DNA binding
19
DNA accessibility
3
3D chromatin structure
1
DNA methylation
Target of assay
76
control
9
transcription factor
3
histone
3
histone modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
82
February, 2021
66
November, 2017
20
May, 2021
15
October, 2019
10
August, 2021
10
March, 2020
8
January, 2019
5
November, 2018
4
November, 2019
1
December, 2018
1
February, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
582
bam
508
bigWig
427
fastq
bed narrowPeak
355
bigBed narrowPeak
110
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
223
Homo sapiens
Biosample type
1661
tissue
343
primary cell
225
cell line
212
in vitro differentiated cells
6
stem cell
Organ
76
liver
65
pancreas
58
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
9
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
223
AMP
2
T1D
Genome assembly (visualization)
129
hg19
106
GRCh38
Lab
225
AMP-T2D consortium
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
0
Katalin Susztak, Upenn
Audit category:
64
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
225 results
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total RNA-seq
ChIP-seq
ATAC-seq
pCHi-C
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
5
67
2
1
1
EndoC_BH1
33
2
18
1
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
Panc1
7
1
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