Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome

AM Wenger, P Peluso, WJ Rowell, PC Chang… - Nature …, 2019 - nature.com
The DNA sequencing technologies in use today produce either highly accurate short reads
or less-accurate long reads. We report the optimization of circular consensus sequencing …

DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer

G Baid, DE Cook, K Shafin, T Yun… - Nature …, 2023 - nature.com
Circular consensus sequencing with Pacific Biosciences (PacBio) technology generates
long (10–25 kilobases), accurate 'HiFi'reads by combining serial observations of a DNA …

Accurate whole-genome sequencing and haplotyping from 10 to 20 human cells

BA Peters, BG Kermani, AB Sparks, O Alferov, P Hong… - Nature, 2012 - nature.com
Recent advances in whole-genome sequencing have brought the vision of personal
genomics and genomic medicine closer to reality. However, current methods lack clinical …

Modernizing reference genome assemblies

DM Church, VA Schneider, T Graves, K Auger… - PLoS …, 2011 - journals.plos.org
The availability of a high quality human genome assembly has revolutionized biomedical
research. Genomics has now entered the realm of clinical genetics, with many groups using …

Performance comparison of whole-genome sequencing platforms

HYK Lam, MJ Clark, R Chen, R Chen, G Natsoulis… - Nature …, 2012 - nature.com
Whole-genome sequencing is becoming commonplace, but the accuracy and completeness
of variant calling by the most widely used platforms from Illumina and Complete Genomics …

De novo assembly of a haplotype-resolved human genome

H Cao, H Wu, R Luo, S Huang, Y Sun, X Tong… - Nature …, 2015 - nature.com
The human genome is diploid, and knowledge of the variants on each chromosome is
important for the interpretation of genomic information. Here we report the assembly of a …

De novo genome assembly: what every biologist should know

M Baker - Nature methods, 2012 - nature.com
Asked how mature the field of genome assembly is, Ian Korf at the University of California,
Davis, compares it to a teenager with great capabilities.“It's got bold assertions about what it …

Assembly and diploid architecture of an individual human genome via single-molecule technologies

M Pendleton, R Sebra, AWC Pang, A Ummat… - Nature …, 2015 - nature.com
We present the first comprehensive analysis of a diploid human genome that combines
single-molecule sequencing with single-molecule genome maps. Our hybrid assembly …

Structural variation in two human genomes mapped at single-nucleotide resolution by whole genome de novo assembly

Y Li, H Zheng, R Luo, H Wu, H Zhu, R Li, H Cao… - Nature …, 2011 - nature.com
Here we use whole-genome de novo assembly of second-generation sequencing reads to
map structural variation (SV) in an Asian genome and an African genome. Our approach …

Genome assembly comparison identifies structural variants in the human genome

R Khaja, J Zhang, JR MacDonald, Y He… - Nature …, 2006 - nature.com
Numerous types of DNA variation exist, ranging from SNPs to larger structural alterations
such as copy number variants (CNVs) and inversions. Alignment of DNA sequence from …