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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
126
ChIP-seq
108
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
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
126
DNA binding
110
Transcription
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
80
control
33
transcription factor
16
histone
16
histone modification
8
broad histone mark
8
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
87
February, 2021
64
November, 2017
44
August, 2021
22
October, 2019
15
November, 2019
9
March, 2020
January, 2019
6
February, 2023
6
November, 2020
5
May, 2021
5
November, 2018
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
521
bam
471
bigWig
378
fastq
353
bed narrowPeak
bigBed narrowPeak
113
tsv
45
bed broadPeak
45
bigBed broadPeak
9
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
264
Homo sapiens
Biosample type
1929
tissue
739
primary cell
320
in vitro differentiated cells
268
cell line
8
stem cell
Organ
100
liver
66
pancreas
59
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
18
kidney
8
embryo
3
blood
3
bodily fluid
1
mammary gland
Project
257
AMP
9
T1D
2
community
Genome assembly (visualization)
159
hg19
126
GRCh38
Lab
221
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:
73
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
inconsistent control read length
1
inconsistent assembly
assay_slims!
DNA accessibility
audit.WARNING.category!
inconsistent control read length
files.file_type!
bigBed narrowPeak
month_released!
January, 2019
BIOSAMPLE
ASSAY
268 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
83
9
2
2
2
1
1
EndoC_BH1
15
33
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
H1-hESC
8
Panc1
7
1
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