High throughput barcoding method for genome-scale phasing
暂无分享,去创建一个
Max Käller | David Redin | Hooman Aghelpasand | Erik Borgström | Remi-Andre Olsen | Afshin Ahmadian | Tobias Frick | Tobias Frick | M. Käller | A. Ahmadian | R. Olsen | E. Borgström | David Redin | H. Aghelpasand | Remi-André Olsen | Erik Borgström | Remi-Andre Olsen
[1] Russell E. Durrett,et al. Assembly and diploid architecture of an individual human genome via single-molecule technologies , 2015, Nature Methods.
[2] Evan Z. Macosko,et al. Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets , 2015, Cell.
[3] Allon M. Klein,et al. Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells , 2015, Cell.
[4] Zhengwei Zhu,et al. CD-HIT: accelerated for clustering the next-generation sequencing data , 2012, Bioinform..
[5] H. Bayley,et al. Continuous base identification for single-molecule nanopore DNA sequencing. , 2009, Nature nanotechnology.
[6] Steven L Salzberg,et al. Fast gapped-read alignment with Bowtie 2 , 2012, Nature Methods.
[7] J. Lupski. Structural variation in the human genome. , 2007, The New England journal of medicine.
[8] Jessica C. Ebert,et al. Accurate whole genome sequencing and haplotyping from10-20 human cells , 2012, Nature.
[9] Steven J. M. Jones,et al. Circos: an information aesthetic for comparative genomics. , 2009, Genome research.
[10] Gonçalo R. Abecasis,et al. The variant call format and VCFtools , 2011, Bioinform..
[11] R. Durbin,et al. Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly , 2016, bioRxiv.
[12] T Laver,et al. Assessing the performance of the Oxford Nanopore Technologies MinION , 2015, Biomolecular detection and quantification.
[13] M. Käller,et al. Droplet Barcode Sequencing for targeted linked-read haplotyping of single DNA molecules , 2017, Nucleic acids research.
[14] Ryan L. Collins,et al. Multi-platform discovery of haplotype-resolved structural variation in human genomes , 2017, bioRxiv.
[15] M. Schatz,et al. Hybrid error correction and de novo assembly of single-molecule sequencing reads , 2012, Nature Biotechnology.
[16] F. Alemán. The Necessity of Diploid Genome Sequencing to Unravel the Genetic Component of Complex Phenotypes , 2017, Front. Genet..
[17] Måns Magnusson,et al. MultiQC: summarize analysis results for multiple tools and samples in a single report , 2016, Bioinform..
[18] Serafim Batzoglou,et al. High-quality genome sequences of uncultured microbes by assembly of read clouds , 2018, Nature Biotechnology.
[19] Anders F. Andersson,et al. Phasing of single DNA molecules by massively parallel barcoding , 2015, Nature Communications.
[20] N. Loman,et al. A complete bacterial genome assembled de novo using only nanopore sequencing data , 2015, Nature Methods.
[21] Heng Li,et al. Minimap2: pairwise alignment for nucleotide sequences , 2017, Bioinform..
[22] Andrew C. Adey,et al. Haplotype-resolved whole-genome sequencing by contiguity-preserving transposition and combinatorial indexing , 2014, Nature Genetics.
[23] Justin M. Zook. Extensive sequencing of seven human genomes to characterize benchmark reference materials , 2015 .
[24] Richard Durbin,et al. Extending reference assembly models , 2015, Genome Biology.
[25] N. Weisenfeld,et al. Direct determination of diploid genome sequences , 2016, bioRxiv.
[26] Marcel Martin. Cutadapt removes adapter sequences from high-throughput sequencing reads , 2011 .
[27] J. Zook,et al. Integrating human sequence data sets provides a resource of benchmark SNP and indel genotype calls , 2013, Nature Biotechnology.
[28] Jonas Korlach,et al. Discovery and genotyping of structural variation from long-read haploid genome sequence data , 2017, Genome research.
[29] S. Turner,et al. Real-Time DNA Sequencing from Single Polymerase Molecules , 2009, Science.
[30] John Huddleston,et al. An Incomplete Understanding of Human Genetic Variation , 2016, Genetics.
[31] Richard Durbin,et al. Sequence analysis Fast and accurate short read alignment with Burrows – Wheeler transform , 2009 .
[32] Xin Li,et al. The impact of structural variation on human gene expression , 2016, Nature Genetics.
[33] Grace X. Y. Zheng,et al. Massively parallel digital transcriptional profiling of single cells , 2016, bioRxiv.
[34] Modesto Orozco,et al. Comprehensive characterization of complex structural variations in cancer by directly comparing genome sequence reads , 2014, Nature Biotechnology.
[35] John R. Haliburton,et al. Droplet barcoding for massively parallel single-molecule deep sequencing , 2016, Nature Communications.
[36] Jay Shendure,et al. Haplotype phasing of whole human genomes using bead-based barcode partitioning in a single tube , 2017, Nature Biotechnology.
[37] Alexey A. Gurevich,et al. QUAST: quality assessment tool for genome assemblies , 2013, Bioinform..
[38] H. Swerdlow,et al. A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers , 2012, BMC Genomics.
[39] Gabor T. Marth,et al. An integrated map of structural variation in 2,504 human genomes , 2015, Nature.
[40] Hanlee P. Ji,et al. Haplotyping germline and cancer genomes using high-throughput linked-read sequencing , 2015, Nature Biotechnology.