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Related Concept Videos

Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

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...
Genomics02:02

Genomics

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...
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Evolution of Microbial Genome01:08

Evolution of Microbial Genome

Microbial genome evolution is a highly dynamic process shaped by continual gene gain and loss across species and strains. This genomic flexibility allows microorganisms to adapt rapidly to environmental pressures and interactions with other organisms. Central to understanding this diversity is the distinction between the core and pan genomes.The core genome comprises the genes shared by all sampled strains of a species, representing essential functions needed for fundamental cellular processes.
Genome-wide Association Studies-GWAS01:11

Genome-wide Association Studies-GWAS

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.
GWAS does not require the identification of the target gene involved in...
CRISPR/Cas9 Genome Editing01:28

CRISPR/Cas9 Genome Editing

The CRISPR-Cas system serves as a bacterial defense mechanism against invading genetic elements such as viruses and plasmids, forming the foundation for its adaptation as a powerful genome-editing tool. Originally discovered in prokaryotes, this system has been repurposed to revolutionize genetic engineering across a wide range of organisms, including plants, animals, and humans. The core component, Cas9, is an endonuclease derived from Streptococcus pyogenes, capable of introducing...

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Updated: Jun 28, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
09:37

An Integrated Approach for Microprotein Identification and Sequence Analysis

Published on: July 12, 2022

The UCSC Genome Browser Database: update 2009.

R M Kuhn1, D Karolchik, A S Zweig

  • 1Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz, Santa Cruz, CA 95064, USA. kuhn@soe.ucsc.edu

Nucleic Acids Research
|November 11, 2008
PubMed
Summary
This summary is machine-generated.

The UCSC Genome Browser Database provides access to extensive genome data and comparative genomics resources for numerous species. It facilitates visualization and analysis of diverse biological datasets for researchers worldwide.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Comparative Genomics

Background:

  • The UCSC Genome Browser Database (GBD) is a vital public resource for genomic data.
  • It hosts genome assembly sequence data and integrated annotations for a wide array of organisms.
  • Comparative-genomic resources are a key feature of the GBD.

Purpose of the Study:

  • To update and expand the UCSC Genome Browser Database with new genome assemblies.
  • To enhance the accessibility and utility of genomic data for scientific research.
  • To provide a comprehensive platform for exploring and analyzing diverse biological datasets.

Main Methods:

  • Addition of 13 new genome assemblies, including primate species like orangutan and marmoset.
  • Integration of diverse datasets such as mRNAs, RefSeq alignments, gene predictions, and regulatory elements.
  • Utilizing a coordinate-based display system in the UCSC Genome Browser for data visualization.

Main Results:

  • The database now contains 46 assemblies for 24 vertebrates and 39 assemblies for 22 invertebrates.
  • Expanded comparative-genomic resources are available for a broader range of species.
  • New genome assemblies enhance the study of evolutionary relationships and genetic variations.

Conclusions:

  • The UCSC Genome Browser Database continues to be an essential, expanding resource for genomic research.
  • The updated database facilitates deeper insights into genome structure and function across diverse taxa.
  • Enhanced data integration and visualization tools support advanced bioinformatics analyses.