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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
133
ChIP-seq
9
total RNA-seq
4
STARR-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
ATAC-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
133
DNA binding
11
Transcription
1
3D chromatin structure
1
DNA accessibility
1
DNA sequencing
Target of assay
75
control
52
transcription factor
7
RNA binding protein
6
histone
6
histone modification
3
broad histone mark
3
narrow histone mark
2
chromatin remodeller
1
recombinant protein
Date released
98
November, 2017
32
August, 2021
7
October, 2019
6
February, 2023
4
February, 2021
4
November, 2018
3
January, 2019
2
March, 2020
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
114
bam
106
fastq
66
bigWig
46
bed narrowPeak
32
bigBed narrowPeak
14
bed broadPeak
14
bigBed broadPeak
12
tsv
6
tagAlign
3
tar
1
bed bed3+
bedpe bed3+
1
hic
1
txt
1
vcf
Organism
158
Homo sapiens
Biosample type
821
tissue
530
primary cell
162
cell line
112
in vitro differentiated cells
6
stem cell
Organ
132
liver
8
pancreas
7
blood
7
bodily fluid
2
artery
2
blood vessel
2
heart
2
kidney
2
vasculature
1
epithelium
1
mammary gland
Project
155
AMP
5
T1D
2
community
Genome assembly (visualization)
469
hg19
GRCh38
Lab
123
AMP-T2D consortium
32
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
Audit category:
8
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
files.file_type!
bedpe bed3+
assembly!
GRCh38
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
162 results
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Clear Filters
ChIP-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
HiChIP
ATAC-seq
CRISPR genome editing followed by sgRNA sequencing
Hi-C
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
117
9
2
2
1
1
GM12878
6
1
Panc1
7
EndoC_BH1
3
2
1
EndoC-BH1
1
1
HEK293T
2
smooth muscle cell of the coronary artery
2
MCF-7
1
MIN6
1
fibroblast cell line
1
iPSC derived cell line
1
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