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Related Concept Videos

Genomics02:02

Genomics

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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...
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Multi-species Conserved Sequences02:51

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Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
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Genome-wide Association Studies-GWAS01:11

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Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
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Author Spotlight: Integrated Multi-Omics Analysis for Unveiling Multicellular Immune Signatures in Clinical Heart Attack Cohorts
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Giotto Suite: a multiscale and technology-agnostic spatial multiomics analysis ecosystem.

Jiaji G Chen1, Joselyn C Chávez-Fuentes2, Matthew O'Brien1

  • 1Section of Hematology and Medical Oncology, Boston University Chobanian & Avedisian School of Medicine and Boston Medical Center, Boston, MA, USA.

Nature Methods
|October 1, 2025
PubMed
Summary

Giotto Suite offers a scalable solution for analyzing diverse spatial multiomics data. This innovative framework harmonizes and visualizes multiscale datasets, enabling new discoveries in spatial biology.

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Area of Science:

  • Computational Biology
  • Bioinformatics
  • Genomics

Background:

  • Spatial multiomics technologies generate vast amounts of data across multiple scales.
  • Integrating and representing diverse spatial datasets remains a significant challenge.

Purpose of the Study:

  • To present Giotto Suite, a modular package for scalable, end-to-end analysis of multiscale spatial multiomics data.
  • To provide a technology-agnostic data framework for harmonizing and visualizing spatial omics information.

Main Methods:

  • Developed an innovative data framework for representing and integrating spatial omics data.
  • Integrated molecular, morphology, spatial, and annotated feature information.
  • Built upon interoperable interfaces and data structures within the R environment.

Main Results:

  • Demonstrated applications across several state-of-the-art spatial technologies.
  • Enabled responsive and flexible workflows for spatial multiomic data analysis.
  • Facilitated the creation of custom pipelines by independent developers.

Conclusions:

  • Giotto Suite provides a comprehensive ecosystem for spatial multiomic data analysis.
  • The framework supports multiscale and multiomic data integration and visualization.
  • It bridges genomics and spatial data science, fostering innovation in the field.