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Whole-genome molecular haplotyping of single cells
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“Recently, several groups demonstrated genome-wide measurement of local5 or sparse21 haplotypes, but these approaches have yet to be applied to aneuploid cancer genomes.”
From The haplotype-resolved genome and epigenome of the aneuploid HeLa cancer cell line (2013) · cites this paper as [21]
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A second generation human haplotype map of over 3.1 million SNPs
The International HapMap Consortium (2007) · Nature · doi:10.1038/nature06258 · Cited by 4,438
Accurate whole human genome sequencing using reversible terminator chemistry
Bentley, D. R., Balasubramanian, S., Swerdlow, H. P., Smith, G. P., Milton, J., Brown, C. G., Hall, K. P., Evers, D. J., Barnes, C. L., Bignell, H. R., et al. (2008) · Nature · doi:10.1038/nature07517 · Cited by 3,684
Self-citationOrigins and functional impact of copy number variation in the human genome
The Wellcome Trust Case Control Consortium, Conrad, D. F., Pinto, D., Redon, R., Feuk, L., Gokcumen, O., Zhang, Y., Aerts, J., Andrews, T. D., Barnes, C., et al. (2010) · Nature · doi:10.1038/nature08516 · Cited by 1,970
The complete genome of an individual by massively parallel DNA sequencing
Wheeler, D. A., Srinivasan, M., Egholm, M., Shen, Y., Chen, L., McGuire, A., He, W., Chen, Y.-J., Makhijani, V., Roth, G. T., et al. (2008) · Nature · doi:10.1038/nature06884 · Cited by 1,838
The Diploid Genome Sequence of an Individual Human
Levy, S., Sutton, G., Ng, P. C., Feuk, L., Halpern, A. L., Walenz, B. P., Axelrod, N., Huang, J., Kirkness, E. F., Denisov, G., et al. (2007) · PLoS Biology · doi:10.1371/journal.pbio.0050254 · Cited by 1,778
The diploid genome sequence of an Asian individual
Wang, J., Wang, W., Li, R., Li, Y., Tian, G., Goodman, L., Fan, W., Zhang, J., Li, J., Zhang, J., et al. (2008) · Nature · doi:10.1038/nature07484 · Cited by 924
Self-citationde Bakker, P. I. W., McVean, G., Sabeti, P. C., Miretti, M. M., Green, T., Marchini, J., Ke, X., Monsuur, A. J., Whittaker, P., Delgado, M., et al. (2006) · Nature Genetics · doi:10.1038/ng1885 · Cited by 766
A highly annotated whole-genome sequence of a Korean individual
Kim, J.-I., Ju, Y. S., Park, H., Kim, S., Lee, S., Yi, J.-H., Mudge, J., Miller, N. A., Hong, D., Bell, C. J., et al. (2009) · Nature · doi:10.1038/nature08211 · Cited by 330
Research works printed but not linked: 41
- Ahn, S.M. et al. The first Korean genome sequence and analysis: full genome sequencing for a socio-ethnic group. Genome Res. 19, 1622–1629 (2009). · DOI
- Pushkarev, D., Neff, N.F. & Quake, S.R. Single-molecule sequencing of an individual human genome. Nat. Biotechnol. 27, 847–850 (2009). · DOI
- Schuster, S.C. et al. Complete Khoisan and Bantu genomes from southern Africa. Nature 463, 943–947 (2010). · DOI
- Petersdorf, E.W., Malkki, M., Gooley, T.A., Martin, P.J. & Guo, Z. MHC haplotype matching for unrelated hematopoietic cell transplantation. PLoS Med. 4, e8 (2007). · DOI
- Stewart, C.A. et al. Complete MHC haplotype sequencing for common disease gene mapping. Genome Res. 14, 1176–1187 (2004). · DOI
- Groenendijk, M., Cantor, R.M., de Bruin, T.W. & Dallinga-Thie, G.M. The apoAI-CIII-AIV gene cluster. Atherosclerosis 157, 1–11 (2001). · DOI
- Nagel, R.L. et al. The Senegal DNA haplotype is associated with the amelioration of anemia in African-American sickle cell anemia patients. Blood 77, 1371–1375 (1991). · DOI
- Sun, T. et al. Haplotypes in matrix metalloproteinase gene cluster on chromosome 11q22 contribute to the risk of lung cancer development and progression. Clin. Cancer Res. 12, 7009–7017 (2006). · DOI
- Drysdale, C.M. et al. Complex promoter and coding region beta 2-adrenergic receptor haplotypes alter receptor expression and predict in vivo responsiveness. Proc. Natl. Acad. Sci. USA 97, 10483–10488 (2000). · DOI
- The International HapMap Consortium. A haplotype map of the human genome. Nature 437, 1299–1320 (2005). · DOI · Paper page
- Zhang, K. et al. Long-range polony haplotyping of individual human chromosome molecules. Nat. Genet. 38, 382–387 (2006). · DOI
- Mitra, R.D. et al. Digital genotyping and haplotyping with polymerase colonies. Proc. Natl. Acad. Sci. USA 100, 5926–5931 (2003). · DOI
- Ding, C. & Cantor, C.R. Direct molecular haplotyping of long-range genomic DNA with M1-PCR. Proc. Natl. Acad. Sci. USA 100, 7449–7453 (2003). · DOI
- Michalatos-Beloin, S., Tishkoff, S.A., Bentley, K.L., Kidd, K.K. & Ruano, G. Molecular haplotyping of genetic markers 10 kb apart by allele-specific long-range PCR. Nucleic Acids Res. 24, 4841–4843 (1996). · DOI
- Ruano, G., Kidd, K.K. & Stephens, J.C. Haplotype of multiple polymorphisms resolved by enzymatic amplification of single DNA molecules. Proc. Natl. Acad. Sci. USA 87, 6296–6300 (1990). · DOI
- Woolley, A.T., Guillemette, C., Li Cheung, C., Housman, D.E. & Lieber, C.M. Direct haplotyping of kilobase-size DNA using carbon nanotube probes. Nat. Biotechnol. 18, 760–763 (2000). · DOI
- Burgtorf, C. et al. Clone-based systematic haplotyping (CSH): a procedure for physical haplotyping of whole genomes. Genome Res. 13, 2717–2724 (2003). · DOI
- Xiao, M. et al. Direct determination of haplotypes from single DNA molecules. Nat. Methods 6, 199–201 (2009). · DOI
- Ma, L. et al. Direct determination of molecular haplotypes by chromosome microdissection. Nat. Methods 7, 299–301 (2010). · DOI
- Douglas, J.A., Boehnke, M., Gillanders, E., Trent, J.M. & Gruber, S.B. Experimentally-derived haplotypes substantially increase the efficiency of linkage disequilibrium studies. Nat. Genet. 28, 361–364 (2001). · DOI
- Marchini, J. et al. A comparison of phasing algorithms for trios and unrelated individuals. Am. J. Hum. Genet. 78, 437–450 (2006). · DOI · Paper page
- Ashley, E.A. et al. Clinical assessment incorporating a personal genome. Lancet 375, 1525–1535 (2010). · DOI · Paper page
- Bredel, M. et al. Amplification of whole tumor genomes and gene-by-gene mapping of genomic aberrations from limited sources of fresh-frozen and paraffin-embedded DNA. J. Mol. Diagn. 7, 171–182 (2005). · DOI
- Marcy, Y. et al. Nanoliter reactors improve multiple displacement amplification of genomes from single cells. PLoS Genet. 3, e155 (2007). · DOI
- Marcy, Y. et al. Dissecting biological “dark matter” with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth. Proc. Natl. Acad. Sci. USA 104, 11889–11894 (2007). · DOI
- Stephens, M., Smith, N.J. & Donnelly, P. A new statistical method for haplotype reconstruction from population data. Am. J. Hum. Genet. 68, 978–989 (2001). · DOI
- Stephens, M. & Donnelly, P. A comparison of Bayesian methods for haplotype reconstruction from population genotype data. Am. J. Hum. Genet. 73, 1162–1169 (2003). · DOI
- Stephens, M. & Scheet, P. Accounting for decay of linkage disequilibrium in haplotype inference and missing-data imputation. Am. J. Hum. Genet. 76, 449–462 (2005). · DOI
- Kukita, Y. et al. Genome-wide definitive haplotypes determined using a collection of complete hydatidiform moles. Genome Res. 15, 1511–1518 (2005). · DOI
- Andres, A.M. et al. Understanding the accuracy of statistical haplotype inference with sequence data of known phase. Genet. Epidemiol. 31, 659–671 (2007). · DOI · Paper page
- Broman, K.W., Murray, J.C., Sheffield, V.C., White, R.L. & Weber, J.L. Comprehensive human genetic maps: individual and sex-specific variation in recombination. Am. J. Hum. Genet. 63, 861–869 (1998). · DOI
- Kong, A. et al. A high-resolution recombination map of the human genome. Nat. Genet. 31, 241–247 (2002). · DOI
- Frazer, K.A. et al. A second generation human haplotype map of over 3.1 million SNPs. Nature 449, 851–861 (2007). · DOI · Paper page
- Su, S.Y. et al. Inferring combined CNV/SNP haplotypes from genotype data. Bioinformatics 26, 1437–1445 (2010). · DOI
- McCarroll, S.A. et al. Integrated detection and population-genetic analysis of SNPs and copy number variation. Nat. Genet. 40, 1166–1174 (2008). · DOI · Paper page
- Shiina, T., Hosomichi, K., Inoko, H. & Kulski, J.K. The HLA genomic loci map: expression, interaction, diversity and disease. J. Hum. Genet. 54, 15–39 (2009). · DOI
- Guo, Z., Hood, L., Malkki, M. & Petersdorf, E.W. Long-range multilocus haplotype phasing of the MHC. Proc. Natl. Acad. Sci. USA 103, 6964–6969 (2006). · DOI
- Maiers, M., Gragert, L. & Klitz, W. High-resolution HLA alleles and haplotypes in the United States population. Hum. Immunol. 68, 779–788 (2007). · DOI
- Price, P. et al. The genetic basis for the association of the 8.1 ancestral haplotype (A1, B8, DR3) with multiple immunopathological diseases. Immunol. Rev. 167, 257–274 (1999). · DOI
- White, R.A. III, Blainey, P.C., Fan, H.C. & Quake, S.R. Digital PCR provides sensitive and absolute calibration for high throughput sequencing. BMC Genomics 10, 116 (2009). · DOI
- Tamura, K., Dudley, J., Nei, M. & Kumar, S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24, 1596–1599 (2007). · DOI
Cited by
Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell
Zong, C., Lu, S., Chapman, A. R., & Xie, X. S. (2012) · Science · doi:10.1126/science.1229164 · Cited by 1,154
Inference of Population Structure using Dense Haplotype Data
Lawson, D. J., Hellenthal, G., Myers, S., & Falush, D. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002453 · Cited by 1,188
Single-cell sequencing-based technologies will revolutionize whole-organism science
Shapiro, E., Biezuner, T., & Linnarsson, S. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3542 · Cited by 1,177
The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line
Xu, X., Nagarajan, H., Lewis, N. E., Pan, S., Cai, Z., Liu, X., Chen, W., Xie, M., Wang, W., Hammond, S., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.1932 · Cited by 785
Self-citationDesign and Analysis of Single-Cell Sequencing Experiments
Grün, D., & van Oudenaarden, A. (2015) · Cell · doi:10.1016/j.cell.2015.10.039 · Cited by 536
Metadata
- Authors
- Fan, H. C., Wang, J., Potanina, A., & Quake, S. R.
- Venue
- Nature Biotechnology
- Published
- 2011-01
- Volume
- 29
- Issue
- 1
- Pages
- 51-57
- ISSN
- 1087-0156
- 1546-1696
- PMC
- PMC4098715
- Cited by
- 325
- References
- 8
- Language
- en
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