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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
438
ChIP-seq
31
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
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
438
DNA binding
33
Transcription
20
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
349
transcription factor
82
recombinant protein
71
control
65
RNA binding protein
31
histone
31
histone modification
30
chromatin remodeller
16
narrow histone mark
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
307
November, 2017
February, 2021
61
November, 2018
43
August, 2021
28
December, 2018
October, 2019
23
January, 2019
21
May, 2021
11
March, 2020
10
November, 2019
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
444
bam
419
fastq
404
bigWig
361
bed narrowPeak
340
bigBed narrowPeak
50
bed broadPeak
50
bigBed broadPeak
37
tsv
6
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
517
Homo sapiens
Biosample type
1723
tissue
896
primary cell
521
cell line
304
in vitro differentiated cells
9
stem cell
Organ
390
liver
61
blood
61
bodily fluid
45
epithelium
45
pancreas
8
embryo
4
kidney
1
mammary gland
Project
510
AMP
9
T1D
2
community
Genome assembly (visualization)
402
hg19
339
GRCh38
Lab
475
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:
47
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
20
inconsistent control read length
8
inconsistent control run_type
assay_title!
RNA microarray
month_released!
February, 2021
October, 2019
target.investigated_as!
broad histone mark
BIOSAMPLE
ASSAY
521 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
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
369
14
2
1
2
1
1
GM12878
60
1
EndoC_BH1
9
7
19
6
3
1
2
2
1
H1-hESC
8
EndoC-BH1
1
1
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