Comparison and critical assessment of single-cell Hi-C protocols

Advances in single-cell sequencing technologies make it possible to study the genome architecture in single cells. The rapid growth of the field has been fueled by the development of innovative single-cell Hi-C protocols. However, the protocols vary considerably in their efficiency, bias, scale and...

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Veröffentlicht in:Heliyon 2022-10, Vol.8 (10), p.e11023-e11023, Article e11023
Hauptverfasser: Gridina, M., Taskina, A., Lagunov, T., Nurislamov, A., Kulikova, T., Krasikova, A., Fishman, V.
Format: Artikel
Sprache:eng
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Zusammenfassung:Advances in single-cell sequencing technologies make it possible to study the genome architecture in single cells. The rapid growth of the field has been fueled by the development of innovative single-cell Hi-C protocols. However, the protocols vary considerably in their efficiency, bias, scale and costs, and their relative advantages for different applications are unclear. Here, we compare the two most commonly used single-cell Hi-C protocols. We use long-read sequencing to analyze molecular products of the Hi-C assay and show that whole-genome amplification step results in increased number of artifacts, larger coverage biases, and increased amount of noise compared to PCR-based amplification. Our comparison provides guidance for researchers studying chromatin architecture in individual cells. Single-cell Hi-C; Genome architecture; Chicken; Oocyte.
ISSN:2405-8440
2405-8440
DOI:10.1016/j.heliyon.2022.e11023