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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
432
ChIP-seq
77
total RNA-seq
10
ATAC-seq
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
pCHi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
Hi-C
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
432
DNA binding
79
Transcription
11
DNA accessibility
1
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
328
transcription factor
82
recombinant protein
75
control
62
RNA binding protein
28
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
69
February, 2021
61
November, 2018
41
August, 2021
December, 2018
23
January, 2019
15
October, 2019
6
February, 2023
4
March, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
493
bam
437
bigWig
399
fastq
356
bed narrowPeak
328
bigBed narrowPeak
80
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
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
535
Homo sapiens
Biosample type
2475
tissue
1000
primary cell
539
cell line
256
in vitro differentiated cells
6
stem cell
Organ
399
liver
66
artery
66
blood vessel
66
heart
66
vasculature
34
blood
34
bodily fluid
14
pancreas
8
embryo
4
kidney
3
epithelium
1
mammary gland
Project
532
AMP
5
T1D
2
community
Genome assembly (visualization)
440
hg19
378
GRCh38
Lab
499
AMP-T2D consortium
33
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
month_released!
December, 2018
audit.ERROR.category!
inconsistent ontology term
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
539 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
pCHi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
Hi-C
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
1
1
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
33
1
Panc1
13
H1-hESC
8
EndoC_BH1
3
2
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
glomerular visceral epithelial cell
1
1
iPSC derived cell line
2
MCF-7
1
MIN6
1
fibroblast cell line
1
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