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Related Concept Videos

Proteomics01:33

Proteomics

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A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
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Protein Networks02:26

Protein Networks

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An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
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Peptide Identification Using Tandem Mass Spectrometry01:33

Peptide Identification Using Tandem Mass Spectrometry

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Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
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Genomics02:02

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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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Protein-protein Interfaces02:04

Protein-protein Interfaces

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Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
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Navigating the Mass Spectrometry-Based Proteomic Data Using Free Computational Tools
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An Introduction to Proteome Bioinformatics.

Shivakumar Keerthikumar1

  • 1Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, VIC, 3086, Australia. S.Keerthikumar@latrobe.edu.au.

Methods in Molecular Biology (Clifton, N.J.)
|December 16, 2016
PubMed
Summary
This summary is machine-generated.

High-throughput proteomics techniques enable comprehensive organismal proteome characterization. Proteome bioinformatics provides essential computational tools and strategies for analyzing this complex protein data in research.

Keywords:
BioinformaticsDatabases and computational toolsProteinsProteomics

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Area of Science:

  • Biomedical research
  • Proteomics
  • Bioinformatics

Background:

  • High-throughput techniques are crucial for advancing basic and translational research.
  • Recent progress in proteomics allows for detailed characterization of proteomes across various organisms.
  • Proteome bioinformatics complements these advancements by providing essential analytical methods.

Discussion:

  • This chapter overviews computational strategies and methods for bioinformatics analysis of protein data.
  • It details various bioinformatics tools, databases, and proteomic techniques discussed within the book.
  • The focus is on enabling researchers to effectively analyze complex proteomic datasets.

Key Insights:

  • Proteomics and bioinformatics are increasingly integrated for biological discovery.
  • Computational tools are vital for interpreting large-scale proteomic data.
  • The book offers a comprehensive guide to these integrated approaches.

Outlook:

  • Future research will likely see further integration of high-throughput proteomics and advanced bioinformatics.
  • Development of novel computational tools will accelerate proteomic data analysis.
  • This synergy will drive significant progress in understanding biological systems and diseases.