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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
396
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
396
DNA binding
111
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
74
control
RNA binding protein
31
histone
31
histone modification
30
chromatin remodeller
16
narrow histone mark
15
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
281
November, 2017
96
February, 2021
43
August, 2021
40
November, 2018
October, 2019
26
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
489
bam
439
bigWig
364
fastq
326
bed narrowPeak
286
bigBed narrowPeak
115
tsv
54
bed broadPeak
54
bigBed broadPeak
20
tagAlign
2
bedpe bed3+
2
hic
2
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
563
Homo sapiens
Biosample type
2487
tissue
1044
primary cell
567
cell line
375
in vitro differentiated cells
10
stem cell
Organ
347
liver
76
epithelium
76
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
556
AMP
9
T1D
2
community
Genome assembly (visualization)
448
hg19
386
GRCh38
Lab
521
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:
78
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
20
inconsistent control read length
5
inconsistent control run_type
month_released!
October, 2019
organ_slims!
lung
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
567 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
324
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
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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