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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
441
ChIP-seq
109
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
441
DNA binding
109
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
349
transcription factor
82
recombinant protein
70
control
65
RNA binding protein
30
chromatin remodeller
20
histone
20
histone modification
11
narrow histone mark
9
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
303
November, 2017
88
February, 2021
61
November, 2018
44
August, 2021
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
553
bam
502
bigWig
427
fastq
389
bed narrowPeak
347
bigBed narrowPeak
115
tsv
58
bed broadPeak
58
bigBed broadPeak
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
608
Homo sapiens
Biosample type
2346
tissue
954
primary cell
610
cell line
346
in vitro differentiated cells
8
stem cell
Organ
389
liver
77
epithelium
77
pancreas
61
blood
61
bodily fluid
60
artery
60
blood vessel
60
heart
60
vasculature
8
embryo
4
kidney
1
mammary gland
Project
601
AMP
9
T1D
Genome assembly (visualization)
493
hg19
430
GRCh38
Lab
565
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Anna Gloyn, Oxford
Audit category:
79
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
lab.title!
Anna Gloyn, Oxford
files.file_type!
tagAlign
month_released!
October, 2019
BIOSAMPLE
ASSAY
610 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
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
366
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
GM12878
60
1
smooth muscle cell of the coronary artery
52
8
H1-hESC
8
HEK293T
2
early embryonic cell
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
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