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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
477
ChIP-seq
57
total RNA-seq
19
ATAC-seq
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
2
pCHi-C
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
477
DNA binding
59
Transcription
21
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
357
transcription factor
89
recombinant protein
78
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
61
November, 2018
44
August, 2021
30
February, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
March, 2020
6
February, 2023
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
511
bam
459
bigWig
427
fastq
391
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
58
tsv
14
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
575
Homo sapiens
Biosample type
2603
tissue
1045
primary cell
579
cell line
386
in vitro differentiated cells
6
stem cell
Organ
401
liver
81
pancreas
68
epithelium
66
artery
66
blood vessel
66
heart
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
Project
571
AMP
6
T1D
2
community
Genome assembly (visualization)
459
hg19
395
GRCh38
Lab
538
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
79
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
month_released!
November, 2020
March, 2020
organ_slims!
vasculature
BIOSAMPLE
ASSAY
579 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
pCHi-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
EndoC_BH1
14
31
17
1
3
2
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
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