Detecting genomic islands using bioinformatics approaches
Bacterial genomes contain clusters of genes that are acquired by horizontal transfer, called
genomic islands (GIs). GIs are frequently associated with microbial adaptations that are of …
genomic islands (GIs). GIs are frequently associated with microbial adaptations that are of …
Microbial genomic island discovery, visualization and analysis
C Bertelli, KE Tilley, FSL Brinkman - Briefings in bioinformatics, 2019 - academic.oup.com
Horizontal gene transfer (also called lateral gene transfer) is a major mechanism for
microbial genome evolution, enabling rapid adaptation and survival in specific niches …
microbial genome evolution, enabling rapid adaptation and survival in specific niches …
Improved genomic island predictions with IslandPath-DIMOB
C Bertelli, FSL Brinkman - Bioinformatics, 2018 - academic.oup.com
Abstract Motivation Genomic islands (GIs) are clusters of genes of probable horizontal origin
that play a major role in bacterial and archaeal genome evolution and microbial adaptability …
that play a major role in bacterial and archaeal genome evolution and microbial adaptability …
VRprofile: gene-cluster-detection-based profiling of virulence and antibiotic resistance traits encoded within genome sequences of pathogenic bacteria
J Li, C Tai, Z Deng, W Zhong, Y He… - Briefings in …, 2018 - academic.oup.com
VRprofile is a Web server that facilitates rapid investigation of virulence and antibiotic
resistance genes, as well as extends these trait transfer-related genetic contexts, in newly …
resistance genes, as well as extends these trait transfer-related genetic contexts, in newly …
Genomic Island Prediction via Chi‐Square Test and Random Forest Algorithm
M Onesime, Z Yang, Q Dai - Computational and Mathematical …, 2021 - Wiley Online Library
Genomic islands are related to microbial adaptation and carry different genomic
characteristics from the host. Therefore, many methods have been proposed to detect …
characteristics from the host. Therefore, many methods have been proposed to detect …
Leveraging comparative genomics to uncover alien genes in bacterial genomes
S Sengupta, RK Azad - Microbial Genomics, 2023 - microbiologyresearch.org
A significant challenge in bacterial genomics is to catalogue genes acquired through the
evolutionary process of horizontal gene transfer (HGT). Both comparative genomics and …
evolutionary process of horizontal gene transfer (HGT). Both comparative genomics and …
2SigFinder: the combined use of small-scale and large-scale statistical testing for genomic island detection from a single genome
R Kong, X Xu, X Liu, P He, MQ Zhang, Q Dai - BMC bioinformatics, 2020 - Springer
Background Genomic islands are associated with microbial adaptations, carrying genomic
signatures different from the host. Some methods perform an overall test to identify genomic …
signatures different from the host. Some methods perform an overall test to identify genomic …
Identify Golgi protein types with modified mahalanobis discriminant algorithm and pseudo amino acid composition
The Golgi apparatus is an important eukaryotic organelle. Successful prediction of Golgi
protein types can provide valuable information for elucidating protein functions involved in …
protein types can provide valuable information for elucidating protein functions involved in …
Comparative analysis of genomic island prediction tools
AC da Silva Filho, RT Raittz, D Guizelini… - Frontiers in …, 2018 - frontiersin.org
Tools for genomic island prediction use strategies for genomic comparison analysis and
sequence composition analysis. The goal of comparative analysis is to identify unique …
sequence composition analysis. The goal of comparative analysis is to identify unique …
MTGIpick allows robust identification of genomic islands from a single genome
Q Dai, C Bao, Y Hai, S Ma, T Zhou… - Briefings in …, 2018 - academic.oup.com
Genomic islands (GIs) that are associated with microbial adaptations and carry sequence
patterns different from that of the host are sporadically distributed among closely related …
patterns different from that of the host are sporadically distributed among closely related …