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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
449
ChIP-seq
35
total RNA-seq
20
ATAC-seq
5
STARR-seq
5
pCHi-C
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
2
DNase-seq
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
449
DNA binding
37
Transcription
22
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
340
transcription factor
88
recombinant protein
80
control
59
RNA binding protein
27
histone
27
histone modification
18
chromatin remodeller
14
narrow histone mark
13
broad histone mark
nucleotide modification
2
other context
2
other post-translational modification
Date released
294
November, 2017
February, 2021
56
November, 2018
44
August, 2021
30
October, 2019
27
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
460
bam
412
bigWig
400
fastq
365
bed narrowPeak
330
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
41
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
tagAlign
1
txt
1
vcf
Organism
532
Homo sapiens
Biosample type
2197
tissue
1035
primary cell
536
cell line
351
in vitro differentiated cells
8
stem cell
Organ
373
liver
63
pancreas
60
blood
60
bodily fluid
50
epithelium
19
kidney
8
embryo
1
mammary gland
Project
525
AMP
9
T1D
2
community
Genome assembly (visualization)
410
hg19
349
GRCh38
Lab
492
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
63
inconsistent ontology term
inconsistent control
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent control
audit.WARNING.category!
inconsistent control read length
month_released!
February, 2021
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
536 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
DNase-seq
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
2
1
2
1
1
GM12878
59
1
EndoC_BH1
15
7
19
1
3
3
2
2
1
Panc1
13
1
1
H1-hESC
8
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