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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
435
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
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
435
DNA binding
111
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
339
transcription factor
81
recombinant protein
74
control
59
RNA binding protein
20
histone
20
histone modification
19
chromatin remodeller
11
narrow histone mark
9
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
294
November, 2017
96
February, 2021
56
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
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
527
bam
476
bigWig
401
fastq
365
bed narrowPeak
323
bigBed narrowPeak
115
tsv
45
bed broadPeak
45
bigBed broadPeak
9
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
602
Homo sapiens
Biosample type
2529
tissue
1049
primary cell
606
cell line
369
in vitro differentiated cells
8
stem cell
Organ
375
liver
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
595
AMP
9
T1D
2
community
Genome assembly (visualization)
484
hg19
422
GRCh38
Lab
559
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:
79
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
month_released!
October, 2019
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
606 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
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
352
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
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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