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Updated: Mar 21, 2026

Mapping Mammalian 3D Genome Interactions with Micro-C-XL

Mapping Mammalian 3D Genome Interactions with Micro-C-XL

Published on: November 3, 2023

LOGIQA: a database dedicated to long-range genome interactions quality assessment.

Marco-Antonio Mendoza-Parra^1,2,3,4,5, Matthias Blum^6,7,8,9,10, Valeriya Malysheva^6,7,8,9,10

¹Equipe Labellisée Ligue Contre le Cancer, Illkirch, France. marco@igbmc.fr.

|May 18, 2016

Summary

LOGIQA is a new database providing quality scores for long-range genome interaction assays. This resource helps researchers assess the quality of chromatin interaction datasets for better gene programming studies.

Keywords:

Chromatin architecture HiC Quality

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Last Updated: Mar 21, 2026

Mapping Mammalian 3D Genome Interactions with Micro-C-XL

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Published on: November 3, 2023

Associated Chromosome Trap for Identifying Long-range DNA Interactions

Associated Chromosome Trap for Identifying Long-range DNA Interactions

Published on: April 23, 2011

Chromatin Immunoprecipitation of Murine Brown Adipose Tissue

Chromatin Immunoprecipitation of Murine Brown Adipose Tissue

Published on: November 21, 2018

Area of Science:

Genomics
Epigenetics
Computational Biology

Background:

Proximity ligation-mediated methods are crucial for understanding 3D chromatin organization's role in gene programming.
Despite advances in computational tools for analyzing long-range chromatin interactions, dataset quality remains largely uncharacterized.

Purpose of the Study:

To develop and present LOGIQA, a novel database for quality assessment of long-range genome interaction assays.
To provide a centralized resource for evaluating the quality of chromatin interaction data.

Main Methods:

Development of LOGIQA, a web-accessible database featuring quality scores for long-range genome interaction assays.
Implementation of a user-friendly interface for querying datasets and visualizing genome interactions.

Main Results:

LOGIQA currently hosts quality control (QC) scores for over 900 datasets.
The database offers insights into the relative quality of datasets and the influence of factors like genome size and coverage.
Users can assess local genome-interaction maps at various resolutions and QC conditions.

Conclusions:

LOGIQA is the pioneering database offering quality scores specifically for long-range chromatin interaction assays.
It serves as a unique platform for visualizing community-contributed genome interaction data and assessing data quality.