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2D NMR: Heteronuclear Single-Quantum Correlation Spectroscopy (HSQC)01:19

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Heteronuclear single-quantum correlation spectroscopy (HSQC) is a 2D NMR technique that reveals one-bond correlations between hydrogen and a heteronucleus. The HSQC experiment is similar to the heteronuclear correlation experiment (HETCOR) but is more sensitive. In the HSQC spectrum, the proton chemical shift is plotted on the horizontal F2 axis, while the 13C chemical shift is plotted on the vertical F1 axis. The corresponding proton and 13C spectra are also shown. The HSQC contour plot does...
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Heteronuclear correlation spectroscopy is an analytical technique that investigates the coupling between different types of nuclei, often a proton and an X-nucleus, such as carbon-13 or nitrogen-15. This method is commonly used in nuclear magnetic resonance (NMR) spectroscopy to gain insights into complex chemical compounds' structural and compositional aspects. A typical heteronuclear correlation spectrum displays X-nucleus chemical shifts on one axis and a proton spectrum on the other...
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Related Experiment Video

Updated: Jun 25, 2025

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
22:27

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Published on: May 6, 2010

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Mariner: explore the Hi-Cs.

Eric S Davis1,2, Sarah M Parker1, Nicole E Kramer1

  • 1Curriculum in Bioinformatics and Computational Biology, University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, United States.

Bioinformatics (Oxford, England)
|May 30, 2024
PubMed
Summary
This summary is machine-generated.

Mariner is a new R/Bioconductor tool that efficiently processes large Hi-C datasets for 3D chromatin structure analysis. It simplifies extracting, aggregating, and plotting genomic contact data, aiding research into gene expression and disease.

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Area of Science:

  • Genomics
  • Computational Biology
  • Molecular Biology

Background:

  • 3D chromatin structure is crucial for gene regulation.
  • Aberrations in chromatin structure are linked to developmental disorders and diseases.
  • High-throughput chromosome conformation capture (Hi-C) techniques generate large, complex datasets.

Purpose of the Study:

  • To introduce mariner, a novel software tool for analyzing Hi-C data.
  • To provide a rapid and memory-efficient solution for processing large Hi-C matrices.
  • To facilitate the extraction, aggregation, and visualization of 3D chromatin contact data.

Main Methods:

  • Mariner utilizes a parallel and block-processing approach for efficient data handling.
  • The tool offers modular functions for customized analysis workflows.
  • Integrated functions enable common Hi-C analyses within the R/Bioconductor environment.

Main Results:

  • Mariner significantly speeds up the extraction and aggregation of Hi-C contact data.
  • The software efficiently handles large Hi-C matrices, reducing computational burden.
  • Seamless integration with Bioconductor allows for comprehensive data analysis and visualization.

Conclusions:

  • Mariner provides a powerful and user-friendly solution for 3D chromatin structure analysis.
  • The tool enhances the accessibility and efficiency of Hi-C data interpretation.
  • Mariner supports advanced customization while offering straightforward options for standard analyses.