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Related Concept Videos

Mass Analyzers: Overview01:13

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The mass analyzer is a crucial component of the mass spectrometer. In the ionization chamber, the vaporized sample is bombarded with a high-energy electron beam to generate a radical cation and further fragment into neutral molecules, radicals, and cations. A series of negatively charged accelerator plates accelerate the cations into the mass analyzer. The mass analyzer separates ions according to their mass-to-charge (m/z) ratios and then directs them to the detector. The common types of mass...
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Health Information Technology and Healthcare Information System01:30

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Health Information Technology (HIT)
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High-Resolution Mass Spectrometry (HRMS)01:15

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The resolution of a mass spectrometer depends on the efficiency of separating ions with different ion masses. The mass of an atom is approximated to the sum of the masses of protons and neutrons inside, considering the masses of protons and neutrons as equal. However, the masses of the proton (1.6726 × 10−24 g) and neutron (1.6749 × 10−24 g) are not truly equal. There is a minor error in the expression of atomic masses relative to the simplest atom of hydrogen. For...
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Applying Cheminformatics to Develop a Structure Searchable Database of Analytical Methods
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Curation of the AMRFinderPlus databases: applications, functionality and impact.

Michael Feldgarden1, Vyacheslav Brover1, Boris Fedorov1

  • 1National Center for Biotechnology Information, U.S. National Library of Medicine 8600 Rockville Pike, Bethesda MD, 20894, USA.

Microbial Genomics
|June 8, 2022
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Summary
This summary is machine-generated.

Antimicrobial resistance (AMR) is a global health crisis. NCBI

Keywords:
antimicrobial resistancecurationgenomics

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Area of Science:

  • Bioinformatics
  • Genomics
  • Public Health

Background:

  • Antimicrobial resistance (AMR) poses a significant global public health threat.
  • Whole-genome sequencing is increasingly used in surveillance programs to identify AMR genes.
  • Bioinformatic tools are crucial for analyzing genomic data to detect AMR determinants.

Purpose of the Study:

  • To describe the curation and quality control of databases, rules, and models used in NCBI's AMRFinderPlus.
  • To detail the accessibility of these resources for researchers studying antimicrobial resistance.
  • To present the analysis of over one million genomes using AMRFinderPlus.

Main Methods:

  • Curated genes, point mutations, BLAST rules, and hidden Markov models for AMR gene identification.
  • Implemented quality control steps to ensure database accuracy.
  • Developed web interfaces for database visualization and cross-browser compatibility.

Main Results:

  • Described the comprehensive curation process for NCBI's AMRFinderPlus databases and analytical components.
  • Demonstrated public availability of databases, rules, and models, including access to software.
  • Analyzed over one million publicly available genomes using AMRFinderPlus, with results accessible via a web interface.

Conclusions:

  • NCBI's AMRFinderPlus provides a robust, quality-controlled resource for identifying AMR genes in genomic data.
  • The curated databases and associated tools are publicly accessible, facilitating research and surveillance.
  • NCBI is committed to the long-term accessibility of these vital AMR-related resources.