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Related Concept Videos

ER Retrieval Pathway01:45

ER Retrieval Pathway

In the secretory pathway, vesicles transport proteins from one cellular compartment to another in forward transport to deliver the protein to its correct location. Occasionally, misfolded proteins and incorrect proteins escape their original compartments, and a retrieval pathway is used to return the escaped proteins to their original compartment.
The ER uses many checkpoints to prevent the entry of incorrectly folded or a resident protein as cargo onto a transport vesicle. These mechanisms...
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Ion-Exchange Chromatography

Ion-exchange chromatography, or IEC, is a technique for separating ions based on their affinity for the stationary phase. The stationary phase is a cross-linked polymer resin with covalently attached ionic functional groups. The functional groups can be either positively charged (cation exchangers) or negatively charged (anion exchangers). A cation exchanger consists of a polymeric anion and active cations, while an anion exchanger is a polymeric cation with active anions. The choice of...
Inductively Coupled Plasma–Mass Spectrometry (ICP–MS): Overview01:19

Inductively Coupled Plasma–Mass Spectrometry (ICP–MS): Overview

In inductively coupled plasma–mass spectrometry (ICP–MS), an inductively coupled plasma (ICP) torch is used as an atomizer and ionizer. Solid samples are dissolved and volatilized before being introduced into the high-temperature argon plasma, while solution samples are nebulized and passed through the high-temperature argon plasma. Plasma dissociates the analytes and ionizes their component atoms to form a mixture of positive ions and molecular species. The positive ions are then passed on to...
Immunocytochemistry and Immunohistochemistry01:22

Immunocytochemistry and Immunohistochemistry

Immunocytochemistry (ICC) and immunohistochemistry (IHC) are techniques that use antibodies to check for specific proteins or antigens in a sample. The technique was first published by Albert Coons in 1941 to detect the presence of pneumococcal antigen in tissue sections from mice infected with Pneumococcus. Immunocytochemistry helps localization of proteins or antigens in individual cells like blood cells, stem cells, etc., while immunohistochemistry does the same for tissue samples.
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Inductively Coupled Plasma-Mass Spectrometry (ICP-MS): Interferences01:20

Inductively Coupled Plasma-Mass Spectrometry (ICP-MS): Interferences

Inductively coupled plasma–mass spectrometry (ICP–MS) is a highly selective and sensitive technique for accurate elemental analysis. Though the analysis of ICP–MS mass spectra is comparatively straightforward, it is affected by spectroscopic and non-spectroscopic interferences. Spectroscopic interferences arise when the plasma contains ionic species with an m/z value the same as the analyte ion. Spectroscopic interference can be categorized as isobaric, polyatomic ions, and refractory oxide ion...
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Chromatin Immunoprecipitation
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Guidelines and Experience Using Imaging Biomarker Explorer (IBEX) for Radiomics
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Published on: January 8, 2018

IDR searcher: a search engine solution for public image resources.

Khaled Mohamed1, William Moore1, Dominik Lindner1

  • 1Faculty of Life Sciences, University of Dundee, Dundee, United Kingdom.

Bioinformatics (Oxford, England)
|July 1, 2026
PubMed
Summary
This summary is machine-generated.

Finding quality bioimaging datasets is challenging. IDR searcher is a new open-source tool that efficiently searches public bioimaging resources, improving data discovery for researchers.

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Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

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Area of Science:

  • Bioimaging
  • Data Science
  • Scientific Informatics

Background:

  • Public bioimage datasets are increasingly available.
  • Efficiently finding quality data in these resources remains a significant challenge.
  • This limitation hinders the reuse of valuable scientific data.

Purpose of the Study:

  • To introduce IDR searcher, an open-source search engine.
  • To facilitate the exploration and discovery of datasets within public bioimaging resources.
  • To address the current disparities in accessing quality datasets for research.

Main Methods:

  • Development of an open-source search engine.
  • Deployment using Ansible playbooks.
  • Release under the GPL v2 license.

Main Results:

  • IDR searcher provides a fast, efficient, and cost-effective solution for dataset discovery.
  • The tool enhances the exploration of public bioimaging datasets.
  • Potential to improve data accessibility and usability for the scientific community.

Conclusions:

  • IDR searcher offers a valuable solution to the challenge of finding quality bioimaging data.
  • The tool can be integrated with metadata visualization for enhanced usability.
  • Facilitates greater reuse of scientific data and supports exploratory research.