The short length of reads from current high-throughput sequencing technologies leads to ambiguities when mapping the genomic location of these reads. Kaplan and Dekker show that Hi-C chromosome conformation capture data, which report the three-dimensional (3D) proximity of DNA regions in cells, contain valuable information on the cis-connectivity of DNA. Supplementing human sequence contigs with Hi-C data from human cells facilitated the mapping of previously unmapped contigs and the de novo assembly of a genome scaffold. The method may be applicable to genomes of various species.
References
Kaplan, N. & Dekker, J. High-throughput genome scaffolding from in vivo DNA interaction frequency. Nature Biotech. http://dx.doi.org/10.1038/nbt.2768 (2013)
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Burgess, D. Scaffolding DNA assemblies by 3D proximity. Nat Rev Genet 15, 5 (2014). https://doi.org/10.1038/nrg3652
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DOI: https://doi.org/10.1038/nrg3652