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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
423
ChIP-seq
28
ATAC-seq
6
MeRIP-seq
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
423
DNA binding
30
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA sequencing
Target of assay
303
transcription factor
80
control
73
recombinant protein
44
RNA binding protein
38
histone
38
histone modification
22
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
November, 2018
27
August, 2021
27
December, 2018
26
October, 2019
18
February, 2021
18
January, 2019
17
May, 2021
15
November, 2019
6
February, 2023
6
November, 2020
2
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
520
bam
464
bigWig
365
fastq
347
bed narrowPeak
298
bigBed narrowPeak
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
hdf5
1
txt
1
vcf
Organism
477
Homo sapiens
Biosample type
1648
tissue
817
primary cell
481
cell line
263
in vitro differentiated cells
6
stem cell
Organ
340
liver
58
pancreas
45
blood
45
bodily fluid
44
epithelium
14
artery
14
blood vessel
14
heart
14
vasculature
13
kidney
Project
472
AMP
7
T1D
2
community
Genome assembly (visualization)
370
hg19
302
GRCh38
Lab
443
AMP-T2D consortium
25
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
53
inconsistent ontology term
inconsistent control
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
21
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent control
month_released!
November, 2018
files.file_type!
tsv
BIOSAMPLE
ASSAY
481 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
333
1
2
2
1
1
EndoC_BH1
15
18
6
1
3
2
2
1
GM12878
44
1
Panc1
13
1
1
smooth muscle cell of the coronary artery
6
8
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