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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
431
ChIP-seq
109
total RNA-seq
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
431
DNA binding
111
Transcription
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
74
control
65
RNA binding protein
31
histone
31
histone modification
chromatin remodeller
16
narrow histone mark
15
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
300
November, 2017
87
February, 2021
54
November, 2018
44
August, 2021
October, 2019
26
December, 2018
17
January, 2019
15
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
513
bam
469
bigWig
397
fastq
349
bed narrowPeak
317
bigBed narrowPeak
114
tsv
54
bed broadPeak
54
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
569
Homo sapiens
Biosample type
2289
tissue
855
primary cell
573
cell line
345
in vitro differentiated cells
10
stem cell
Organ
380
liver
58
artery
58
blood vessel
58
epithelium
58
heart
58
pancreas
58
vasculature
50
blood
50
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
562
AMP
9
T1D
2
community
Genome assembly (visualization)
467
hg19
406
GRCh38
Lab
526
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
60
inconsistent ontology term
Audit category:
7
missing controlled_by
Audit category:
15
inconsistent control read length
assay_title!
ATAC-seq
month_released!
October, 2019
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
573 results
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Clear Filters
ChIP-seq
total RNA-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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
2
2
2
1
1
EndoC_BH1
15
33
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
GM12878
50
H1-hESC
8
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
iPSC derived cell line
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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