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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
403
ChIP-seq
27
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
403
DNA binding
29
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
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
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
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
502
bigWig
501
bam
403
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
454
Homo sapiens
Biosample type
1502
tissue
785
primary cell
458
cell line
222
in vitro differentiated cells
5
stem cell
Organ
326
liver
55
blood
55
bodily fluid
45
pancreas
37
epithelium
12
artery
12
blood vessel
12
heart
12
vasculature
10
kidney
Project
450
AMP
6
T1D
2
community
Genome assembly (visualization)
410
hg19
359
GRCh38
Lab
427
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:
43
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
month_released!
March, 2020
BIOSAMPLE
ASSAY
458 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
12
17
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
8
Panc1
7
1
1
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