De novo assembly and annotation of the CHOZN® GS−/− genome supports high‐throughput genome‐scale screening
Sign Up to like & getrecommendations! Published in 2022 at "Biotechnology and Bioengineering"
DOI: 10.1002/bit.28226
Abstract: Chinese hamster ovary (CHO) cells have been used as the industry standard for the production of therapeutic monoclonal antibodies for several decades. Despite significant improvements in commercial‐scale production processes and media, the CHO cell has… read more here.
Keywords: novo assembly; scale; assembly annotation; cho ... See more keywords
De novo assembly and characterization of the Hucho taimen transcriptome
Sign Up to like & getrecommendations! Published in 2018 at "Ecology and Evolution"
DOI: 10.1002/ece3.3735
Abstract: Abstract Taimen (Hucho taimen) is an important ecological and economic species that is classified as vulnerable by the IUCN Red List of Threatened Species; however, limited genomic information is available on this species. RNA‐Seq is… read more here.
Keywords: novo assembly; hucho taimen; assembly; assembly characterization ... See more keywords
De novo assembly and annotation of the whole transcriptome of Sepiella maindroni
Sign Up to like & getrecommendations! Published in 2017 at "Marine Genomics"
DOI: 10.1016/j.margen.2017.06.004
Abstract: Abstract As an important cephalopods species, Sepiella maindroni fishery has suffered a severe decline due to over-fishing since the 1980s. Stock enhancement has been applied to the resource recovery of this species, but a sexual… read more here.
Keywords: annotation; whole transcriptome; novo assembly; sepiella maindroni ... See more keywords
De novo assembly and annotation of the Avicennia officinalis L. transcriptome
Sign Up to like & getrecommendations! Published in 2017 at "Marine Genomics"
DOI: 10.1016/j.margen.2017.07.002
Abstract: Abstract Avicennia officinalis L. is a typical mangrove species, inhabiting inhospitable environments in the interface between sea and land. In this study, we generated RNA-seq data to de novo assemble the A. officinalis transcriptome. Starting… read more here.
Keywords: avicennia officinalis; novo assembly; assembly annotation; annotation avicennia ... See more keywords
Comparative de novo assembly and annotation of mantle tissue transcriptomes from the Mytilus edulis species complex (M. edulis, M. galloprovincialis, M. trossulus)
Sign Up to like & getrecommendations! Published in 2020 at "Marine Genomics"
DOI: 10.1016/j.margen.2019.100700
Abstract: Abstract Mytilus mussels (Mytilus edulis (ME), M. trossulus (MT), and M. galloprovincialis (MG)) are of interest in many fields of marine science and have been used as model in evolutionary research. For instance, they form… read more here.
Keywords: comparative novo; novo assembly; annotation; mytilus edulis ... See more keywords
De novo assembly and annotation of the transcriptome of Astyanax lacustris liver unveil candidate genes to monitor response to environmental stress.
Sign Up to like & getrecommendations! Published in 2020 at "Marine genomics"
DOI: 10.1016/j.margen.2020.100784
Abstract: Astyanax lacustris is a freshwater characid fish species that inhabits small streams, lakes and rivers in South America. These fish are abundant in the wild and highly adaptable in captive, being considered a good model… read more here.
Keywords: lacustris liver; novo assembly; environmental stress; lacustris ... See more keywords
Tools and Strategies for Long-Read Sequencing and De Novo Assembly of Plant Genomes.
Sign Up to like & getrecommendations! Published in 2019 at "Trends in plant science"
DOI: 10.1016/j.tplants.2019.05.003
Abstract: The commercial release of third-generation sequencing technologies (TGSTs), giving long and ultra-long sequencing reads, has stimulated the development of new tools for assembling highly contiguous genome sequences with unprecedented accuracy across complex repeat regions. We… read more here.
Keywords: novo assembly; plant; long read; assembly ... See more keywords
De novo Assembly of the Benzenoid Ring as a Core Strategy for Synthesis of the Isoindolinone Natural Products Isohericerin, Erinacerin A, and Sterenin A.
Sign Up to like & getrecommendations! Published in 2021 at "Organic letters"
DOI: 10.1021/acs.orglett.1c02752
Abstract: Here we describe the use of the hexadehydro-Diels-Alder (HDDA) reaction for the de novo construction of the isoindolinone scaffold and its application to the synthesis of the title natural products. The key isoindolinone-forming HDDA reaction… read more here.
Keywords: novo assembly; natural products; benzenoid ring; isoindolinone ... See more keywords
Efficient hybrid de novo assembly of human genomes with WENGAN
Sign Up to like & getrecommendations! Published in 2020 at "Nature Biotechnology"
DOI: 10.1038/s41587-020-00747-w
Abstract: Generating accurate genome assemblies of large, repeat-rich human genomes has proved difficult using only long, error-prone reads, and most human genomes assembled from long reads add accurate short reads to polish the consensus sequence. Here… read more here.
Keywords: novo assembly; contig ng50; efficient hybrid; assembly ... See more keywords
RNA sequencing and de novo assembly of Solanum trilobatum leaf transcriptome to identify putative transcripts for major metabolic pathways
Sign Up to like & getrecommendations! Published in 2018 at "Scientific Reports"
DOI: 10.1038/s41598-018-33693-4
Abstract: Solanum trilobatum L. is an important medicinal plant in traditional Indian system of medicine belonging to Solanaceae family. However, non-availability of genomic resources hinders its research at the molecular level. We have analyzed the S.… read more here.
Keywords: solanum trilobatum; novo assembly; trilobatum leaf; rna sequencing ... See more keywords
Kollector: transcript-informed, targeted de novo assembly of gene loci
Sign Up to like & getrecommendations! Published in 2017 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btx078
Abstract: Motivation: Despite considerable advancements in sequencing and computing technologies, de novo assembly of whole eukaryotic genomes is still a time‐consuming task that requires a significant amount of computational resources and expertise. A targeted assembly approach… read more here.
Keywords: novo assembly; kollector; gene; gene loci ... See more keywords