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Related Concept Videos

Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

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 DNA...
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...
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Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.

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Comprehensive Workflow for the Genome-wide Identification and Expression Meta-analysis of the ATL E3 Ubiquitin Ligase Gene Family in Grapevine
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Comet: an open-source MS/MS sequence database search tool.

Jimmy K Eng1, Tahmina A Jahan, Michael R Hoopmann

  • 1Department of Genome Sciences, University of Washington, Seattle, WA 98195-8050, USA. engj@u.washington.edu

Proteomics
|November 14, 2012
PubMed
Summary
This summary is machine-generated.

Comet is a new, open-source search engine for proteomics research. It aids in identifying peptides and proteins using MS/MS sequence database searches, offering a free alternative for researchers.

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Area of Science:

  • Proteomics
  • Bioinformatics
  • Computational Biology

Background:

  • Mass spectrometry/mass spectrometry (MS/MS) is crucial for protein identification.
  • Database search engines are essential tools in proteomics workflows.
  • Existing tools include commercial and open-source options.

Purpose of the Study:

  • Introduce the Comet search engine.
  • Provide an open-source, freely available alternative for MS/MS data analysis.
  • Leverage established algorithms for reliable protein identification.

Main Methods:

  • Development and implementation of the Comet search engine.
  • Utilized MS/MS spectral data for peptide and protein identification.
  • Database searching against protein sequence databases.

Main Results:

  • Comet is presented as a new, open-source database search engine.
  • It is freely available to the research community.
  • It is based on well-established and widely used algorithms.

Conclusions:

  • Comet offers a valuable, accessible tool for proteomics research.
  • The open-source nature facilitates wider adoption and potential community development.
  • Researchers now have an additional robust option for MS/MS data analysis.