TY - JOUR AU - Goodwin, S. AU - McPherson, J. D. AU - McCombie, W. R. PY - 2016 DA - 2016// TI - Coming of age: ten years of next-generation sequencing technologies JO - Nat Rev Genet VL - 17 UR - https://doi.org/10.1038/nrg.2016.49 DO - 10.1038/nrg.2016.49 ID - Goodwin2016 ER - TY - JOUR AU - Alkan, C. AU - Sajjadian, S. AU - Eichler, E. E. PY - 2011 DA - 2011// TI - Limitations of next-generation genome sequence assembly JO - Nat Methods VL - 8 UR - https://doi.org/10.1038/nmeth.1527 DO - 10.1038/nmeth.1527 ID - Alkan2011 ER - TY - JOUR AU - Berlin, K. AU - Koren, S. AU - Chin, C. S. AU - Drake, J. P. AU - Landolin, J. M. AU - Phillippy, A. M. PY - 2015 DA - 2015// TI - Assembling large genomes with single-molecule sequencing and locality-sensitive hashing JO - Nat Biotechnol VL - 33 UR - https://doi.org/10.1038/nbt.3238 DO - 10.1038/nbt.3238 ID - Berlin2015 ER - TY - JOUR AU - Koren, S. AU - Phillippy, A. M. PY - 2015 DA - 2015// TI - One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly JO - Curr Opin Microbiol VL - 23 UR - https://doi.org/10.1016/j.mib.2014.11.014 DO - 10.1016/j.mib.2014.11.014 ID - Koren2015 ER - TY - STD TI - Shelton JM, Coleman MC, Herndon N, Lu N, Lam ET, Anantharaman T, et al. Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool. BMC Genomics. 2015;16:734. ID - ref5 ER - TY - STD TI - Mostovoy Y, Levy-Sakin M, Lam J, Lam ET, Hastie AR, Marks P, et al. A hybrid approach for de novo human genome sequence assembly and phasing. Nat Methods. 2016;13(7):587–90. ID - ref6 ER - TY - STD TI - Pendleton M, Sebra R, Pang AW, Ummat A, Franzen O, Rausch T, et al. Assembly and diploid architecture of an individual human genome via single-molecule technologies. Nat Methods. 2015;12(8):780–6. ID - ref7 ER - TY - STD TI - Rosenfeld JA, Reeves D, Brugler MR, Narechania A, Simon S, Durrett R, et al. Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius. Nat Commun. 2016;7:10164. ID - ref8 ER - TY - STD TI - Stankova H, Hastie AR, Chan S, Vrana J, Tulpova Z, Kubalakova M, et al. BioNano genome mapping of individual chromosomes supports physical mapping and sequence assembly in complex plant genomes. Plant Biotechnol J. 2016;14(7):1523–31. ID - ref9 ER - TY - STD TI - VanBuren R, Bryant D, Edger PP, Tang H, Burgess D, Challabathula D, et al. Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum. Nature. 2015;527(7579):508–11. ID - ref10 ER - TY - STD TI - Xiao S, Li J, Ma F, Fang L, Xu S, Chen W, et al. Rapid construction of genome map for large yellow croaker (Larimichthys crocea) by the whole-genome mapping in BioNano Genomics Irys system. BMC Genomics. 2015;16:670. ID - ref11 ER - TY - STD TI - Hastie AR, Dong L, Smith A, Finklestein J, Lam ET, Huo N, et al. Rapid genome mapping in nanochannel arrays for highly complete and accurate de novo sequence assembly of the complex Aegilops tauschii genome. PLoS One. 2013;8(2):e55864. ID - ref12 ER - TY - STD TI - Tukey JW. Exploratory data analysis. Reading, MA: Addison-Wesley; 1977. ID - ref13 ER - TY - JOUR AU - Skinner, M. E. AU - Uzilov, A. V. AU - Stein, L. D. AU - Mungall, C. J. AU - Holmes, I. H. PY - 2009 DA - 2009// TI - JBrowse: a next-generation genome browser JO - Genome Res VL - 19 UR - https://doi.org/10.1101/gr.094607.109 DO - 10.1101/gr.094607.109 ID - Skinner2009 ER - TY - STD TI - Zook JM, Chapman B, Wang J, Mittelman D, Hofmann O, Hide W, et al. Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls. Nat Biotechnol. 2014;32(3):246–51. ID - ref15 ER - TY - STD TI - Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, et al. Versatile and open software for comparing large genomes. Genome Biol. 2004;5(2):R12. ID - ref16 ER - TY - JOUR AU - Altschul, S. F. AU - Gish, W. AU - Miller, W. AU - Myers, E. W. AU - Lipman, D. J. PY - 1990 DA - 1990// TI - Basic local alignment search tool JO - J Mol Biol VL - 215 UR - https://doi.org/10.1016/S0022-2836(05)80360-2 DO - 10.1016/S0022-2836(05)80360-2 ID - Altschul1990 ER -