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Related Concept Videos

High-Resolution Mass Spectrometry (HRMS)01:15

High-Resolution Mass Spectrometry (HRMS)

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 example, the mass of helium...
Overview of Metabolism01:40

Overview of Metabolism

Living cells constantly carry out various chemical reactions which are necessary for their proper functioning. These reactions are interlinked to one another via multiple pathways. The collection of these chemical reactions is known as metabolism.
Plant Metabolism
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Mass Spectrometry: Overview01:19

Mass Spectrometry: Overview

Mass spectrometry is an analytical technique used to determine the molecular mass and molecular formula of a compound. The basic principle of mass spectrometry is to generate ions from the analyte molecule and measure these ion abundances against their molecular mass. One common type of ionization, known as electron ionization or EI, bombards the analyte molecules in the gas phase with high-energy electron beams. The electron beams displace an electron from the molecule and leave behind a...
Overview of Fatty Acid Metabolism01:28

Overview of Fatty Acid Metabolism

Lipids also are sources of energy that power cellular processes. Like carbohydrates, lipids are composed of carbon, hydrogen, and oxygen, but these atoms are arranged differently. Most lipids are nonpolar and hydrophobic. Major types include fats and oils, waxes, phospholipids, and steroids.
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Drug Metabolism: Phase II Reactions01:14

Drug Metabolism: Phase II Reactions

Phase II reactions are essential for the detoxification and elimination of drugs from the body. These reactions involve the conjugation of parent drugs or their phase I metabolites with endogenous molecules, resulting in more hydrophilic drug conjugates. The primary conjugation reactions in this phase are sulfation and glucuronidation. Both sulfation and glucuronidation typically produce biologically inactive metabolites. However, in some cases involving prodrugs, active metabolites may be...
Drug Metabolism: Phase I Reactions01:17

Drug Metabolism: Phase I Reactions

A phase I reaction is a biochemical process that introduces a functionally reactive polar group to a substance. This transformation predominantly occurs in the liver, facilitated by the cytochrome P450 system of hemoproteins situated in the lipophilic endoplasmic reticulum of cells. The metabolite generated through this process can have varying polarities. If it is sufficiently polar, it can be easily excreted in the urine due to its water compatibility. However, if the metabolite is nonpolar,...

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An Integrated Workflow of Identification and Quantification on FDR Control-Based Untargeted Metabolome
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An Integrated Workflow of Identification and Quantification on FDR Control-Based Untargeted Metabolome

Published on: September 20, 2022

HMDB: a knowledgebase for the human metabolome.

David S Wishart1, Craig Knox, An Chi Guo

  • 1Department of Computing Science, Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada T6G 2E8. david.wishart@ualberta.ca

Nucleic Acids Research
|October 28, 2008
PubMed
Summary
This summary is machine-generated.

The Human Metabolome Database (HMDB) has been significantly expanded with over 6800 metabolite entries and enhanced search tools. This updated resource supports diverse research in metabolomics and clinical biochemistry.

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An Integrated Workflow of Identification and Quantification on FDR Control-Based Untargeted Metabolome
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Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry (UPLC-MS)
07:34

Large Scale Non-targeted Metabolomic Profiling of Serum by Ultra Performance Liquid Chromatography-Mass Spectrometry (UPLC-MS)

Published on: March 14, 2013

Area of Science:

  • Biochemistry
  • Metabolomics
  • Systems Biology

Background:

  • The Human Metabolome Database (HMDB) is a vital resource for researchers in biochemistry, clinical chemistry, and metabolomics.
  • Previous versions have supported numerous published studies since its inception in 2007.

Purpose of the Study:

  • To announce and detail the significant expansion and enhancement of the HMDB database in its latest release (version 2.0).
  • To improve data accessibility and analytical capabilities for a wider scientific community.

Main Methods:

  • Database expansion included a threefold increase in fully annotated metabolite entries (to over 6800).
  • Incorporated a fivefold increase in metabolites with biofluid or tissue concentration data (to 4413).
  • Enhanced spectral data for over 790 purified compounds and improved search functionalities.

Main Results:

  • The HMDB now contains over 6800 fully annotated metabolite entries.
  • Over 4400 metabolites include biofluid or tissue concentration data.
  • Enhanced spectral data and advanced search tools (spectral, substructure, text, pathway) are now available.

Conclusions:

  • The expanded HMDB (version 2.0) offers a vastly richer dataset and improved usability.
  • Enhanced search algorithms and navigation tools facilitate easier and more powerful data exploration.
  • These improvements aim to increase the utility of HMDB for a broader range of scientific disciplines.