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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
404
ChIP-seq
28
ATAC-seq
5
STARR-seq
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
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
404
DNA binding
30
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
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
259
November, 2017
58
November, 2018
28
December, 2018
23
August, 2021
17
May, 2021
17
October, 2019
15
February, 2021
15
January, 2019
13
November, 2019
6
February, 2023
3
November, 2020
2
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
509
bigWig
506
bam
404
bed narrowPeak
365
fastq
355
bigBed narrowPeak
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
456
Homo sapiens
Biosample type
1474
tissue
786
primary cell
460
cell line
226
in vitro differentiated cells
5
stem cell
Organ
326
liver
55
blood
55
bodily fluid
47
pancreas
39
epithelium
12
artery
12
blood vessel
12
heart
12
vasculature
10
kidney
Project
451
AMP
7
T1D
2
community
Genome assembly (visualization)
412
hg19
360
GRCh38
Lab
429
AMP-T2D consortium
21
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
45
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
target.investigated_as!
control
files.file_type!
tsv
BIOSAMPLE
ASSAY
460 results
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Clear Filters
ChIP-seq
ATAC-seq
STARR-seq
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
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
1
2
2
1
1
1
GM12878
54
1
EndoC_BH1
13
18
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
8
Panc1
7
1
1
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