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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
109
total RNA-seq
13
ATAC-seq
6
pCHi-C
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
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
403
DNA binding
111
Transcription
15
DNA accessibility
4
3D chromatin structure
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
nucleotide modification
2
other context
2
other post-translational modification
Date released
259
November, 2017
93
February, 2021
58
November, 2018
40
August, 2021
28
December, 2018
May, 2021
21
October, 2019
20
January, 2019
14
November, 2019
11
March, 2020
6
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
504
bigWig
501
bam
403
bed narrowPeak
365
fastq
355
bigBed narrowPeak
115
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
551
Homo sapiens
Biosample type
2492
tissue
846
primary cell
555
cell line
231
in vitro differentiated cells
9
stem cell
Organ
341
liver
64
artery
64
blood vessel
64
heart
64
vasculature
57
pancreas
55
blood
55
bodily fluid
50
epithelium
16
kidney
8
embryo
1
mammary gland
Project
545
AMP
8
T1D
2
community
Genome assembly (visualization)
512
hg19
459
GRCh38
Lab
518
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
60
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!
May, 2021
organ_slims!
eye
target.investigated_as!
control
nucleotide modification
BIOSAMPLE
ASSAY
555 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
EndoC_BH1
12
29
3
1
3
2
2
1
Panc1
7
1
1
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