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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
462
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
462
DNA binding
115
Transcription
31
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
358
transcription factor
89
recombinant protein
83
control
64
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
305
November, 2017
96
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
27
October, 2019
22
January, 2019
20
May, 2021
11
November, 2019
10
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
565
bam
503
bigWig
419
fastq
386
bed narrowPeak
345
bigBed narrowPeak
119
tsv
53
bed broadPeak
53
bigBed broadPeak
15
tagAlign
3
bed bed3+
tar
2
bedpe bed3+
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
634
Homo sapiens
Biosample type
2442
tissue
966
primary cell
638
cell line
335
in vitro differentiated cells
9
stem cell
Organ
388
liver
82
pancreas
72
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
60
blood
60
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
629
AMP
7
T1D
2
community
Genome assembly (visualization)
506
hg19
448
GRCh38
Lab
594
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
85
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
hic
tar
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
638 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
1
1
1
EndoC_BH1
9
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
10
1
1
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