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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
459
ChIP-seq
10
ATAC-seq
4
STARR-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
459
DNA binding
Transcription
12
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
75
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
24
August, 2021
18
February, 2021
18
January, 2019
16
October, 2019
6
February, 2023
2
March, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
452
bam
422
fastq
396
bigWig
383
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
3
tsv
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
489
Homo sapiens
Biosample type
1420
tissue
609
primary cell
491
cell line
232
in vitro differentiated cells
7
stem cell
Organ
387
liver
61
blood
61
bodily fluid
16
pancreas
14
artery
14
blood vessel
14
heart
14
vasculature
3
kidney
2
epithelium
1
mammary gland
Project
486
AMP
5
T1D
Genome assembly (visualization)
402
hg19
339
GRCh38
Lab
462
AMP-T2D consortium
24
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
Audit category:
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
assay_slims!
Transcription
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
491 results
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Clear Filters
ChIP-seq
ATAC-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
GM12878
60
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
EndoC_BH1
3
2
1
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