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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
413
ChIP-seq
112
total RNA-seq
28
ATAC-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
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
413
DNA binding
114
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
316
transcription factor
89
recombinant protein
81
control
60
RNA binding protein
26
chromatin remodeller
14
histone
14
histone modification
9
narrow histone mark
5
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
257
November, 2017
96
February, 2021
61
November, 2018
44
August, 2021
29
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
567
bam
510
bigWig
427
fastq
392
bed narrowPeak
355
bigBed narrowPeak
118
tsv
59
bed broadPeak
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
583
Homo sapiens
Biosample type
2557
tissue
1038
primary cell
587
cell line
388
in vitro differentiated cells
10
stem cell
Organ
343
liver
75
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
63
epithelium
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
576
AMP
9
T1D
2
community
Genome assembly (visualization)
457
hg19
406
GRCh38
Lab
540
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
FAIRE-seq
files.file_type!
bigBed broadPeak
month_released!
November, 2019
BIOSAMPLE
ASSAY
587 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-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
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
320
14
1
2
2
2
1
1
EndoC_BH1
2
32
18
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
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