[HTML][HTML] Long walk to genomics: History and current approaches to genome sequencing and assembly
Genomes represent the starting point of genetic studies. Since the discovery of DNA
structure, scientists have devoted great efforts to determine their sequence in an exact way …
structure, scientists have devoted great efforts to determine their sequence in an exact way …
Advances and opportunities in malaria population genomics
Almost 20 years have passed since the first reference genome assemblies were published
for Plasmodium falciparum, the deadliest malaria parasite, and Anopheles gambiae, the …
for Plasmodium falciparum, the deadliest malaria parasite, and Anopheles gambiae, the …
Towards complete and error-free genome assemblies of all vertebrate species
High-quality and complete reference genome assemblies are fundamental for the
application of genomics to biology, disease, and biodiversity conservation. However, such …
application of genomics to biology, disease, and biodiversity conservation. However, such …
Identifying and removing haplotypic duplication in primary genome assemblies
D Guan, SA McCarthy, J Wood, K Howe, Y Wang… - …, 2020 - academic.oup.com
Motivation Rapid development in long-read sequencing and scaffolding technologies is
accelerating the production of reference-quality assemblies for large eukaryotic genomes …
accelerating the production of reference-quality assemblies for large eukaryotic genomes …
Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies
Background Recent developments in third-gen long read sequencing and diploid-aware
assemblers have resulted in the rapid release of numerous reference-quality assemblies for …
assemblers have resulted in the rapid release of numerous reference-quality assemblies for …
Progressive Cactus is a multiple-genome aligner for the thousand-genome era
New genome assemblies have been arriving at a rapidly increasing pace, thanks to
decreases in sequencing costs and improvements in third-generation sequencing …
decreases in sequencing costs and improvements in third-generation sequencing …
De novo assembly of haplotype-resolved genomes with trio binning
Complex allelic variation hampers the assembly of haplotype-resolved sequences from
diploid genomes. We developed trio binning, an approach that simplifies haplotype …
diploid genomes. We developed trio binning, an approach that simplifies haplotype …
High-resolution comparative analysis of great ape genomes
ZN Kronenberg, IT Fiddes, D Gordon, S Murali… - Science, 2018 - science.org
INTRODUCTION Understanding the genetic differences that make us human is a long-
standing endeavor that requires the comprehensive discovery and comparison of all forms …
standing endeavor that requires the comprehensive discovery and comparison of all forms …
A chromosome-level Camptotheca acuminata genome assembly provides insights into the evolutionary origin of camptothecin biosynthesis
M Kang, R Fu, P Zhang, S Lou, X Yang, Y Chen… - Nature …, 2021 - nature.com
Camptothecin and its derivatives are widely used for treating malignant tumors. Previous
studies revealed only a limited number of candidate genes for camptothecin biosynthesis in …
studies revealed only a limited number of candidate genes for camptothecin biosynthesis in …
The Juicebox Assembly Tools module facilitates de novo assembly of mammalian genomes with chromosome-length scaffolds for under $1000
Hi-C contact maps are valuable for genome assembly (;;). Recently, we developed Juicebox,
a system for the visual exploration of Hi-C data, and 3D-DNA, an automated pipeline for …
a system for the visual exploration of Hi-C data, and 3D-DNA, an automated pipeline for …