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Biotechnology Information geneious mapper
Geneious Mapper, supplied by Biotechnology Information, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/geneious+mapper/geneious+mapper/pmc11510588-42-6-50
Average 90 stars, based on 1 article reviews
geneious mapper - by Bioz Stars, 2026-10
90/100 stars

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Article Title: Novel Lymphocytic Choriomeningitis Virus Strain Sustains Abundant Exhausted Progenitor CD8 T Cells without Systemic Viremia.
Article Snippet: The reads were mapped to the two segments corresponding to National Center for Biotechnology Information (NCBI) reference genome assembly GCA_004789475 using the Geneious mapper, with the medium sensitivity preset customized to use three iterations of fine-tuning and a minimum overlap length of 50 bp.

Virus:

Article Title: Molecular Characterization of a Clade 2.3.4.4b H5N1 High Pathogenicity Avian Influenza Virus from a 2022 Outbreak in Layer Chickens in the Philippines
Article Snippet: About 50 fmol of the resulting DNA library was loaded onto a MinION flowcell (MIN106 R9.4.1; ONT, England, UK) and was run in MinKNOW v. 23.07.15 for up to 24 h. Reads were base-called using a super accurate model (dna_r9.4.1_450bps_sup.cfg), deconvoluted in Porechop v0.2.4 ( https://github.com/rrwick/Porechop , accessed on 2 May 2024) with default parameters (-discard_middle) and loaded on Geneious Prime (v.2023.2.1; Biomatters Ltd., Auckland, New Zealand). .. Reads were mapped initially using the default Geneious mapper (medium sensitivity/fast, 5 iterations) against a subset of avian influenza virus genomes in Asia in the past three years (Type: A, Region: Asia, Segment: Any, Subtype: H5 and N (any), Released from 2020 to 2023) obtained from the National Center for Biotechnology Information (NCBI) Influenza Virus Resource ( https://www.ncbi.nlm.nih.gov/genomes/FLU/ , accessed on 2 May 2024). ..



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Genetic map of linear plasmid p19Msa1099_9 (GenBank accession number CP079956.2 ). Arrows show the position and orientation of predicted coding regions. The predicted genes are color-coded according to the legend. The sequences of physical ends of the hairpin plasmid are shown below the gene map. The mapping of sequencing reads longer than 10 kb to the assembled plasmid sequence revealed a centrally symmetric alignment of reads to the covalently closed ends of the hairpin plasmid. These reads resulted from the unfolding of the terminal hairpin structure during Oxford Nanopore sequencing technology (ONT) as it passed through the nanopore, and therefore, the unmapped parts correspond to the complementary strand (highlighted by a red dotted line). The mean coverage calculated from all ONT reads by <t>Geneious</t> mapper was 881× with a standard deviation of 215.
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Biotechnology Information geneious mapper
Genetic map of linear plasmid p19Msa1099_9 (GenBank accession number CP079956.2 ). Arrows show the position and orientation of predicted coding regions. The predicted genes are color-coded according to the legend. The sequences of physical ends of the hairpin plasmid are shown below the gene map. The mapping of sequencing reads longer than 10 kb to the assembled plasmid sequence revealed a centrally symmetric alignment of reads to the covalently closed ends of the hairpin plasmid. These reads resulted from the unfolding of the terminal hairpin structure during Oxford Nanopore sequencing technology (ONT) as it passed through the nanopore, and therefore, the unmapped parts correspond to the complementary strand (highlighted by a red dotted line). The mean coverage calculated from all ONT reads by <t>Geneious</t> mapper was 881× with a standard deviation of 215.
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Genetic map of linear plasmid p19Msa1099_9 (GenBank accession number CP079956.2 ). Arrows show the position and orientation of predicted coding regions. The predicted genes are color-coded according to the legend. The sequences of physical ends of the hairpin plasmid are shown below the gene map. The mapping of sequencing reads longer than 10 kb to the assembled plasmid sequence revealed a centrally symmetric alignment of reads to the covalently closed ends of the hairpin plasmid. These reads resulted from the unfolding of the terminal hairpin structure during Oxford Nanopore sequencing technology (ONT) as it passed through the nanopore, and therefore, the unmapped parts correspond to the complementary strand (highlighted by a red dotted line). The mean coverage calculated from all ONT reads by Geneious mapper was 881× with a standard deviation of 215.

Journal: Applied and Environmental Microbiology

Article Title: Evidence of in vitro mecB -mediated β-lactam antibiotic resistance transfer to Staphylococcus aureus from Macrococcus psychrotolerans sp. nov., a psychrophilic bacterium from food-producing animals and human clinical specimens

doi: 10.1128/aem.01652-24

Figure Lengend Snippet: Genetic map of linear plasmid p19Msa1099_9 (GenBank accession number CP079956.2 ). Arrows show the position and orientation of predicted coding regions. The predicted genes are color-coded according to the legend. The sequences of physical ends of the hairpin plasmid are shown below the gene map. The mapping of sequencing reads longer than 10 kb to the assembled plasmid sequence revealed a centrally symmetric alignment of reads to the covalently closed ends of the hairpin plasmid. These reads resulted from the unfolding of the terminal hairpin structure during Oxford Nanopore sequencing technology (ONT) as it passed through the nanopore, and therefore, the unmapped parts correspond to the complementary strand (highlighted by a red dotted line). The mean coverage calculated from all ONT reads by Geneious mapper was 881× with a standard deviation of 215.

Article Snippet: Long sequencing reads were mapped to the reference chromosomal and plasmid sequences using the built-in Geneious Mapper (Minimum mapping quality: 10) in Geneious Prime v2024.0.5 (GraphPad Software, New Zealand).

Techniques: Plasmid Preparation, Sequencing, Nanopore Sequencing, Standard Deviation