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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
484
ChIP-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
whole genome sequencing assay
Assay category
484
DNA binding
Transcription
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
28
December, 2018
27
August, 2021
23
October, 2019
18
January, 2019
14
November, 2019
9
February, 2021
6
February, 2023
6
November, 2020
5
March, 2020
1
May, 2020
1
May, 2021
1
October, 2022
Available data
466
bam
422
fastq
413
bigWig
392
bed narrowPeak
353
bigBed narrowPeak
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
5
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
hdf5
1
txt
1
vcf
Organism
513
Homo sapiens
Biosample type
1080
tissue
515
cell line
360
primary cell
213
in vitro differentiated cells
8
stem cell
Organ
386
liver
60
blood
60
bodily fluid
38
pancreas
25
epithelium
14
kidney
6
artery
6
blood vessel
6
heart
6
vasculature
1
mammary gland
Project
508
AMP
7
T1D
Genome assembly (visualization)
410
hg19
347
GRCh38
Lab
479
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
37
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
files.file_type!
hdf5
assay_slims!
DNA accessibility
Transcription
BIOSAMPLE
ASSAY
515 results
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Clear Filters
ChIP-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
whole genome sequencing assay
cell line
HepG2
378
2
2
2
1
1
GM12878
60
EndoC_BH1
15
6
3
1
2
2
1
Panc1
13
smooth muscle cell of the coronary artery
6
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