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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
439
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
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
439
DNA binding
115
Transcription
31
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
346
transcription factor
88
recombinant protein
83
control
59
RNA binding protein
27
histone
27
histone modification
chromatin remodeller
14
narrow histone mark
13
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
285
November, 2017
96
February, 2021
54
November, 2018
43
August, 2021
29
October, 2019
25
December, 2018
21
May, 2021
17
January, 2019
15
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
537
bam
476
bigWig
381
fastq
361
bed narrowPeak
312
bigBed narrowPeak
119
tsv
43
bed broadPeak
43
bigBed broadPeak
9
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
609
Homo sapiens
Biosample type
2753
tissue
1072
primary cell
613
cell line
372
in vitro differentiated cells
8
stem cell
Organ
364
liver
90
pancreas
78
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
602
AMP
9
T1D
2
community
Genome assembly (visualization)
482
hg19
423
GRCh38
Lab
567
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
91
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
inconsistent control read length
assay_title!
Hi-C
target.investigated_as!
chromatin remodeller
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
613 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
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
343
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
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