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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
131
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
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
131
DNA binding
115
Transcription
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
33
transcription factor
18
histone
18
histone modification
9
broad histone mark
9
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
95
February, 2021
66
November, 2017
44
August, 2021
22
October, 2019
21
May, 2021
16
November, 2019
8
January, 2019
7
March, 2020
6
February, 2023
6
November, 2020
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
October, 2022
Available data
582
bam
522
bigWig
427
fastq
404
bed narrowPeak
bigBed narrowPeak
114
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
297
Homo sapiens
Biosample type
2049
tissue
962
primary cell
372
in vitro differentiated cells
301
cell line
6
stem cell
Organ
106
liver
85
pancreas
78
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
16
kidney
8
embryo
7
blood
7
bodily fluid
Project
290
AMP
9
T1D
2
community
Genome assembly (visualization)
178
hg19
141
GRCh38
Lab
254
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:
90
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
assay_title!
pCHi-C
lab.title!
Katalin Susztak, Upenn
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
301 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
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
85
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
Panc1
7
1
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