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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
446
ChIP-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
446
DNA binding
Transcription
10
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
69
control
64
RNA binding protein
30
chromatin remodeller
19
histone
19
histone modification
10
narrow histone mark
9
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
25
August, 2021
18
February, 2021
18
January, 2019
October, 2019
5
February, 2023
4
March, 2020
1
January, 2018
1
May, 2020
1
October, 2022
Available data
437
bam
422
fastq
387
bigWig
375
bed narrowPeak
347
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
5
tsv
3
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
476
Homo sapiens
Biosample type
1119
tissue
477
cell line
425
primary cell
247
in vitro differentiated cells
8
stem cell
Organ
387
liver
61
blood
61
bodily fluid
44
epithelium
pancreas
14
artery
14
blood vessel
14
heart
14
vasculature
4
kidney
1
mammary gland
Project
472
AMP
5
T1D
Genome assembly (visualization)
393
hg19
330
GRCh38
Lab
447
AMP-T2D consortium
25
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
Audit category:
3
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
assay_slims!
Transcription
files.file_type!
hdf5
month_released!
October, 2019
organ_slims!
pancreas
BIOSAMPLE
ASSAY
477 results
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ChIP-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
378
1
2
2
2
1
1
GM12878
60
1
smooth muscle cell of the coronary artery
6
8
EndoC_BH1
3
2
HEK293T
2
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