bootscan analysis (Simplot Science)

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Simplot Science bootscan analysis

Analysis of the BJ-HKU31 spike (S) protein. ( A ) Detection of a possible recombination event was conducted using <t>bootscan</t> analysis. A whole genome sequence similarity plot was performed using Simplot (v3.5.1), with a window size of 1000 bp and a step size of 200 bp. A bat coronavirus (GenBank accession no. KC869678 ) served as the query sequence and was compared against other coronaviruses, including Ea -HedCoV HKU31 (red, this study), BtVs-BetaCoV/SC2013 (green), and bat coronavirus HKU4 (yellow). ( B ) Amino acid sequence alignments of receptor-binding domain (RBD) sequences of hedgehog coronaviruses. The sequence of MERS-CoV (GenBank accession no. NC_019843 ) was used as the reference sequence. Different colors are used to highlight distinct residues, red asterisks mark conserved residues (functionally critical in MERS-CoV).

Bootscan Analysis, supplied by Simplot Science, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/bootscan+algorithm+simplot+v3%2E5%2E1/analysis+bootscan/pmc12843918-63-15-20
Average 86 stars, based on 1 article reviews

bootscan analysis - by Bioz Stars, 2026-11

86/100 stars

Images

1) Product Images from "Phylogenetic Characteristics and High Prevalence of a Merbecovirus in Hedgehogs from Greenspace of a Metropolis, China"

Article Title: Phylogenetic Characteristics and High Prevalence of a Merbecovirus in Hedgehogs from Greenspace of a Metropolis, China

Journal: Microorganisms

doi: 10.3390/microorganisms14010083

Analysis of the BJ-HKU31 spike (S) protein. ( A ) Detection of a possible recombination event was conducted using bootscan analysis. A whole genome sequence similarity plot was performed using Simplot (v3.5.1), with a window size of 1000 bp and a step size of 200 bp. A bat coronavirus (GenBank accession no. KC869678 ) served as the query sequence and was compared against other coronaviruses, including Ea -HedCoV HKU31 (red, this study), BtVs-BetaCoV/SC2013 (green), and bat coronavirus HKU4 (yellow). ( B ) Amino acid sequence alignments of receptor-binding domain (RBD) sequences of hedgehog coronaviruses. The sequence of MERS-CoV (GenBank accession no. NC_019843 ) was used as the reference sequence. Different colors are used to highlight distinct residues, red asterisks mark conserved residues (functionally critical in MERS-CoV).

Figure Legend Snippet: Analysis of the BJ-HKU31 spike (S) protein. ( A ) Detection of a possible recombination event was conducted using bootscan analysis. A whole genome sequence similarity plot was performed using Simplot (v3.5.1), with a window size of 1000 bp and a step size of 200 bp. A bat coronavirus (GenBank accession no. KC869678 ) served as the query sequence and was compared against other coronaviruses, including Ea -HedCoV HKU31 (red, this study), BtVs-BetaCoV/SC2013 (green), and bat coronavirus HKU4 (yellow). ( B ) Amino acid sequence alignments of receptor-binding domain (RBD) sequences of hedgehog coronaviruses. The sequence of MERS-CoV (GenBank accession no. NC_019843 ) was used as the reference sequence. Different colors are used to highlight distinct residues, red asterisks mark conserved residues (functionally critical in MERS-CoV).

Techniques Used: Sequencing, Binding Assay

Recombinant:

Article Title: Epidemiological dynamics and molecular characteristics of HIV-1 among transgender women in the Central-West region of Brazil
Article Snippet: .. Potential recombinant sequences were identified using a bootscan analysis in the SimPlot version 3.5.1 program (sliding window of 200 bp, step size of 10 bp). ..

Article Title: Epidemiological dynamics and molecular characteristics of HIV-1 among transgender women in the Central-West region of Brazil.
Article Snippet: .. Potential recombinant sequences were identified using a bootscan analysis in the SimPlot version 3.5.1 program (sliding window of 200 bp, step size of 10 bp). ..

other:

Article Title: Phylogenetic Characteristics and High Prevalence of a Merbecovirus in Hedgehogs from Greenspace of a Metropolis, China
Article Snippet: To assess potential recombination events in the genomes of hedgehog CoVs identified in this study, Bootscan analysis was performed using SimPlot (v3.5.1; SCRoftware, Johns Hopkins University School of Medicine, Baltimore, MD, USA) with a 1000 bp sliding window and 200 bp step size, based on the Kimura two-parameter model and the Neighbor-Joining method.

Sequencing:

Article Title: Adaptive Evolution and Distinct Mutation Signatures of Full‐Length HBV Quasispecies in HBeAg‐Negative Chronic Hepatitis B
Article Snippet: .. Using RDP4 results, the major and minor parental quasispecies sequences, together with one reference genotype C and one genotype H sequence from NCBI, were selected for BootScan analysis using SimPlot to validate intrahost recombination. ..

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