ArticleGenome research2003
Clone-based systematic haplotyping (CSH): a procedure for physical haplotyping of whole genomes.
Article in Genome research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Noninvasive prenatal testing of α-thalassemia and β-thalassemia through population-based parental haplotyping.Genome medicine · 2021Article
- Recent Advances in Experimental Whole Genome Haplotyping Methods.International journal of molecular sciences · 2017Review
- Novel copy number variation of the TGFβ3 gene is associated with TGFβ3 gene expression and duration of fertility traits in hens.PloS one · 2017Article
- An accurate clone-based haplotyping method by overlapping pool sequencing.Nucleic acids research · 2016Article
- Haplotype-resolved genome sequencing: experimental methods and applications.Nature reviews. Genetics · 2015Review
- Multiple haplotype-resolved genomes reveal population patterns of gene and protein diplotypes.Nature communications · 2014Article
- Efficient de novo assembly of large and complex genomes by massively parallel sequencing of Fosmid pools.BMC genomics · 2014Article
- Whole-genome haplotyping by dilution, amplification, and sequencing.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- On the design of clone-based haplotyping.Genome biology · 2013Article
- Fosmid-based whole genome haplotyping of a HapMap trio child: evaluation of Single Individual Haplotyping techniques.Nucleic acids research · 2012Article
- A comprehensively molecular haplotype-resolved genome of a European individual.Genome research · 2011Article
- Whole-genome molecular haplotyping of single cells.Nature biotechnology · 2011Article
- A Simple PCR-RFLP Method for Genetic Phase Determination in Compound Heterozygotes.Frontiers in genetics · 2011Article
- Experimental generation of SNP haplotype signatures in patients with sickle cell anaemia.PloS one · 2010Article
- Direct determination of haplotypes from single DNA molecules.Nature methods · 2009Article
- Shape-IT: new rapid and accurate algorithm for haplotype inference.BMC bioinformatics · 2008Article
- SNP-specific extraction of haplotype-resolved targeted genomic regions.Nucleic acids research · 2008Article
- ISHAPE: new rapid and accurate software for haplotyping.BMC bioinformatics · 2007Article
- An efficient method for multi-locus molecular haplotyping.Nucleic acids research · 2007Article
- Computation of haplotypes on SNPs subsets: advantage of the "global method".BMC genetics · 2006Article
Corrections and comments
- Erratum issued
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present a novel methodology to determine the phase of single-nucleotide polymorphisms (SNPs) on a chromosome, which we term clone-based systematic haplotyping (CSH). The CSH procedure is based on separating the allelic chromosomes of a diploid genome by fosmid/cosmid cloning, and subsequent SNP typing of 96 clone pools, each representing approximately 10% of the genome. The pools are screened by PCR for the sequence of interest, followed by SNP typing on the PCR products using the GOOD assay. We demonstrate that by CSH, the haplotype of SNPs separated by more than 50 kilobases can definitely be assigned. We propose this method as being suitable for constructing maps of ancestral haplotypes, analysis of complex diseases, and for diagnosis of rare defects in which the molecular haplotype is crucial. In addition, by amplifying the initial DNA by many orders of magnitude, the original DNA resource is effectively immortalized, enabling the haplotyping of hundreds of thousands of SNPs per individual.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.