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Related Concept Videos

Affinity Chromatography01:03

Affinity Chromatography

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Affinity chromatography is a powerful technique extensively utilized for separating and purifying specific biomolecules from complex mixtures. It capitalizes on the highly selective binding between an analyte and its counterpart, such as antibody-antigen interactions. The counterpart is immobilized on the stationary phase, forming an affinity column. The stationary phase typically consists of solid support, such as agarose or porous glass beads, immobilizing the affinity ligand. The mobile...
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Chromatographic Resolution01:15

Chromatographic Resolution

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In chromatography, a solute moves through a chromatographic column and tends to spread, forming a Gaussian-shaped band. The longer the solute spends in the column, the broader the band becomes. The broadening can lead to overlaps within the column, affecting separation effectiveness.
The effectiveness of separation can be evaluated by determining the level of separation between two neighboring peaks in a chromatogram, which represents the individual components of a sample.
In chromatography,...
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Optimizing Chromatographic Separations01:15

Optimizing Chromatographic Separations

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Optimizing chromatographic separations is crucial for obtaining clean separations in a minimum amount of time. Optimization is required for several factors, including kinetic effects related to band broadening, plate height, capacity factor, and separation factor.
Band broadening refers to spreading solute bands as they travel through the column. This broadening can impact resolution. Plate height (H) represents the length required for one theoretical plate. A lower plate height corresponds to...
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Chromatography: Introduction01:10

Chromatography: Introduction

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Chromatography is a technique used to separate compounds based on differences of partitioning between two phases, the stationary phase and the mobile phase.
The phase in which the compounds linger or on which the compounds adsorb is called the stationary phase, whereas the mobile phase is the solvent that carries the solutes to be analyzed. In traditional column chromatography, the mixture flows through the stationary phase, and the compounds partition between the stationary and mobile phases...
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Types Of Column Chromatography01:29

Types Of Column Chromatography

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The stability and compatibility of column material with samples are crucial for efficient purification in chromatographic techniques. Various operating parameters such as pH, temperature, or solvent affect the packing of the column material, thereby determining the purification efficiency. The choice of column material also plays an essential role in deciding the operating parameters and can be modified based on the proteins that need to be purified.
Gel Filtration Chromatography
When the...
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Principles Of Column Chromatography01:13

Principles Of Column Chromatography

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The chromatography technique was first invented in 1901 by Michael S. Tswett, a Russian botanist, to separate plant pigments using organic solvents. Further, in 1941, Archer John Porter Martin and R. L. M. Synge modified the technique by packing silica gel into a column. A mixture of amino acids was then separated on the packed column using chloroform and water mixture as the mobile phase. This was the first report on column chromatography. At present, column chromatography is a widely used...
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Related Experiment Video

Updated: Dec 21, 2025

Chromatographic Fingerprinting by Template Matching for Data Collected by Comprehensive Two-Dimensional Gas Chromatography
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DrawAlignR: An Interactive Tool for Across Run Chromatogram Alignment Visualization.

Shubham Gupta1,2, Justin Sing1,2, Arshia Mahmoodi2,3

  • 1Department of Molecular Genetics, University of Toronto, Toronto, ON, M5G 1A8, Canada.

Proteomics
|May 18, 2020
PubMed
Summary
This summary is machine-generated.

A new tool, DrawAlignR, offers interactive visualization for proteomics data-independent acquisition (DIA) alignment. Its faster C++ algorithm improves cross-run chromatogram analysis and peptide correspondence.

Keywords:
algorithmsbioinformaticsdata-independent acquisitionproteomicsvisualization

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Area of Science:

  • Proteomics
  • Analytical Chemistry
  • Bioinformatics

Background:

  • Multi-run alignment is crucial in proteomics for matching analytes across experiments.
  • Current alignment methods often provide cumulative scores, lacking peptide-specific interpretability.

Purpose of the Study:

  • To introduce DrawAlignR, an interactive visualization tool for cross-run chromatogram alignment in data-independent acquisition (DIA) proteomics.
  • To present a significantly faster C++ implementation for raw chromatogram alignment.

Main Methods:

  • Development of DrawAlignR, an open-source web application utilizing R Shiny.
  • Implementation of a novel C++ algorithm for raw chromatogram alignment, achieving 35x speed improvement over existing methods.
  • Interactive plotting capabilities for visualizing alignment results.

Main Results:

  • DrawAlignR provides an intuitive interface for visualizing and interpreting peptide alignment across multiple runs.
  • The new C++ alignment algorithm demonstrates substantial performance gains, enhancing processing speed.
  • The algorithm is designed for integration into various software platforms.

Conclusions:

  • DrawAlignR enhances the interpretability of proteomics data-independent acquisition (DIA) alignment through interactive visualization.
  • The optimized C++ alignment algorithm offers a significant speed advantage for large-scale proteomics data analysis.
  • DrawAlignR is an accessible, open-source tool facilitating improved cross-run analyte correspondence in proteomics research.