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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
461
ChIP-seq
108
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
STARR-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
461
DNA binding
110
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
78
control
64
RNA binding protein
30
chromatin remodeller
28
histone
28
histone modification
15
narrow histone mark
13
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
23
January, 2019
21
May, 2021
November, 2019
15
October, 2019
9
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
552
bam
498
bigWig
427
fastq
384
bed narrowPeak
354
bigBed narrowPeak
112
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
623
Homo sapiens
Biosample type
2398
tissue
1052
primary cell
627
cell line
389
in vitro differentiated cells
10
stem cell
Organ
401
liver
76
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
63
epithelium
61
blood
61
bodily fluid
kidney
8
embryo
1
mammary gland
Project
616
AMP
9
T1D
2
community
Genome assembly (visualization)
504
hg19
439
GRCh38
Lab
582
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
61
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
organ_slims!
kidney
month_released!
November, 2019
BIOSAMPLE
ASSAY
627 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
EndoC_BH1
2
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
EndoC-BH1
1
1
early embryonic cell
2
iPSC derived cell line
2
MCF-7
1
MIN6
1
Synthesized DNA
1
fibroblast cell line
1
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