Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

DNA Microarrays02:34

DNA Microarrays

17.2K
Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...
17.2K
Genomics02:02

Genomics

36.0K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
36.0K
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

5.7K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.7K
Genomic DNA in Eukaryotes00:58

Genomic DNA in Eukaryotes

46.7K
Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
46.7K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Occupancy-based mechanism is the chief mode of ROS1 function in preventing DNA hypermethylation.

Nature plants·2026
Same author

Global, Regional, and National Prevalence for Type 2 Diabetes Among Women of Childbearing Age, 1992-2021: An Age-Period-Cohort Analysis Based on the Global Burden of Disease Study 2021.

Journal of diabetes research·2026
Same author

cfMethDB: A Comprehensive cfDNA Methylation Data Resource for Cancer Biomarkers.

Genomics, proteomics & bioinformatics·2025
Same author

Contribution of leukocyte telomere length to cardiovascular disease onset from genome-wide cross-trait analysis.

Nature communications·2025
Same author

Shared genetic architecture contributes to risk of major cardiovascular diseases.

Nature communications·2025
Same author

Pore-C Pipeline-Toolbox: a comprehensive pipeline for Pore-C data analysis.

Briefings in bioinformatics·2025

Related Experiment Video

Updated: Jun 8, 2025

Mapping Mammalian 3D Genome Interactions with Micro-C-XL
11:41

Mapping Mammalian 3D Genome Interactions with Micro-C-XL

Published on: November 3, 2023

2.3K

EXPRESSO: a multi-omics database to explore multi-layered 3D genomic organization.

Liuyang Cai1, Jun Qiao1, Ruixin Zhou1

  • 1Department of Pharmacology, Joint Laboratory of Guangdong-Hong Kong Universities for Vascular Homeostasis and Diseases, School of Medicine, Southern University of Science and Technology, Shenzhen 518055, China.

Nucleic Acids Research
|November 5, 2024
PubMed
Summary
This summary is machine-generated.

The EXPRESSO database integrates multi-omics data to visualize 3D genome organization and gene regulation across human tissues. This resource aids researchers in understanding genome architecture

More Related Videos

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering
09:43

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Published on: November 22, 2019

6.2K
3D Multicolor DNA FISH Tool to Study Nuclear Architecture in Human Primary Cells
11:25

3D Multicolor DNA FISH Tool to Study Nuclear Architecture in Human Primary Cells

Published on: January 25, 2020

10.3K

Related Experiment Videos

Last Updated: Jun 8, 2025

Mapping Mammalian 3D Genome Interactions with Micro-C-XL
11:41

Mapping Mammalian 3D Genome Interactions with Micro-C-XL

Published on: November 3, 2023

2.3K
Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering
09:43

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Published on: November 22, 2019

6.2K
3D Multicolor DNA FISH Tool to Study Nuclear Architecture in Human Primary Cells
11:25

3D Multicolor DNA FISH Tool to Study Nuclear Architecture in Human Primary Cells

Published on: January 25, 2020

10.3K

Area of Science:

  • Genomics
  • Epigenetics
  • Bioinformatics

Background:

  • The three-dimensional (3D) genome organization is critical for gene regulation.
  • Understanding the interplay between 3D genome structure and gene expression requires integrated multi-omics data.

Purpose of the Study:

  • To introduce EXPRESSO, a novel multi-omics database for exploring and visualizing 3D genomic features across 46 human tissues.
  • To provide a comprehensive resource for studying the relationship between 3D genome architecture and transcriptional regulation.

Main Methods:

  • Integration of 1360 3D genomic datasets (Hi-C, HiChIP, ChIA-PET) and 842 1D genomic/transcriptomic datasets (ChIP-seq, ATAC-seq, RNA-seq) from matched biosamples.
  • Development of a user-friendly interface for data exploration, visualization, and download.
  • Implementation of RESTful APIs for programmatic access and web-based applications for correlating genomic features with gene expression.

Main Results:

  • EXPRESSO offers diverse 3D genomic feature types, including compartments, contact matrices, domains, stripes, and chromatin loops.
  • The database provides advanced visualization tools and web applications to explore multi-layered 3D genomic data.
  • Programmatic access via RESTful APIs allows for advanced data retrieval and analysis.

Conclusions:

  • EXPRESSO serves as a vital, freely available resource for the research community to deepen understanding of 3D genome architecture.
  • The database facilitates research into the implications of 3D genome organization for human health and disease.
  • EXPRESSO enables comprehensive exploration of the relationship between spatial genome organization and gene regulation.