相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。RDP5: a computer program for analyzing recombination in, and removing signals of recombination from, nucleotide sequence datasets
Darren P. Martin et al.
VIRUS EVOLUTION (2021)
Brief Report: Complete Genome Sequence of CG-0018a-01 Establishes HIV-1 Subtype L
Julie Yamaguchi et al.
JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES (2020)
Current and historic HIV-1 molecular epidemiology in paediatric and adult population from Kinshasa in the Democratic Republic of Congo
Marina Rubio-Garrido et al.
SCIENTIFIC REPORTS (2020)
Pervasive and non-random recombination in near full-length HIV genomes from Uganda
Heather E. Grant et al.
VIRUS EVOLUTION (2020)
Adapting Stochastic Block Models to Power-Law Degree Distributions
Maoying Qiao et al.
IEEE TRANSACTIONS ON CYBERNETICS (2019)
Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa
Nuno R. Faria et al.
PLOS PATHOGENS (2019)
Evidence for a recombinant origin of HIV-1 Group M from genomic variation
Abayomi S. Olabode et al.
VIRUS EVOLUTION (2019)
Benchmarking of alignment-free sequence comparison methods
Andrzej Zielezinski et al.
GENOME BIOLOGY (2019)
ARCHITECT HIV Combo Ag/Ab and RealTime HIV-1 Assays Detect Diverse HIV Strains in Clinical Specimens
Mary A. Rodgers et al.
AIDS RESEARCH AND HUMAN RETROVIRUSES (2018)
A high HIV-1 strain variability in London, UK, revealed by full-genome analysis: Results from the ICONIC project
Gonzalo Yebra et al.
PLOS ONE (2018)
Characterization update of HIV-1 M subtypes diversity and proposal for subtypes A and D sub-subtypes reclassification
Nathalie Desire et al.
RETROVIROLOGY (2018)
Statistical clustering of temporal networks through a dynamic stochastic block model
Catherine Matias et al.
JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY (2017)
A survey of methods for time series change point detection
Samaneh Aminikhanghahi et al.
KNOWLEDGE AND INFORMATION SYSTEMS (2017)
Modern-day SIV viral diversity generated by extensive recombination and cross-species transmission
Sidney M. Bell et al.
PLOS PATHOGENS (2017)
Social and Genetic Networks of HIV-1 Transmission in New York City
Joel O. Wertheim et al.
PLOS PATHOGENS (2017)
Revealing the hidden structure of dynamic ecological networks
Vincent Miele et al.
ROYAL SOCIETY OPEN SCIENCE (2017)
Estimating the in-vivo HIV template switching and recombination rate
Deborah Cromer et al.
AIDS (2016)
Trend analysis and change point techniques: a survey
Shilpy Sharma et al.
ENERGY ECOLOGY AND ENVIRONMENT (2016)
PANGEA-HIV: phylogenetics for generalised epidemics in Africa
Deenan Pillay et al.
LANCET INFECTIOUS DISEASES (2015)
Estimation and model selection for model-based clustering with the conditional classification likelihood
Jean-Patrick Baudry
ELECTRONIC JOURNAL OF STATISTICS (2015)
Global Dispersal Pattern of HIV Type 1 Subtype CRF01_AE: A Genetic Trace of Human Mobility Related to Heterosexual Sexual Activities Centralized in Southeast Asia
Konstantinos Angelis et al.
JOURNAL OF INFECTIOUS DISEASES (2015)
changepoint: AnRPackage for Changepoint Analysis
Rebecca Killick et al.
Journal of Statistical Software (2015)
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Lam-Tung Nguyen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
Choosing the number of clusters in a finite mixture model using an exact integrated completed likelihood criterion
Marco Bertoletti et al.
METRON-INTERNATIONAL JOURNAL OF STATISTICS (2015)
RDP4: Detection and analysis of recombination patterns in virus genomes
Darren P. Martin et al.
VIRUS EVOLUTION (2015)
COMET: adaptive context-based modeling for ultrafast HIV-1 subtype identification
Daniel Struck et al.
NUCLEIC ACIDS RESEARCH (2014)
The early spread and epidemic ignition of HIV-1 in human populations
Nuno R. Faria et al.
SCIENCE (2014)
Frequency and implications of HIV superinfection
Andrew D. Redd et al.
LANCET INFECTIOUS DISEASES (2013)
Optimal Detection of Changepoints With a Linear Computational Cost
R. Killick et al.
JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION (2012)
Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease
Denis M. Tebit et al.
LANCET INFECTIOUS DISEASES (2011)
HIV classification using the coalescent theory
Ingo Bulla et al.
BIOINFORMATICS (2010)
The role of recombination in the emergence of a complex and dynamic HIV epidemic
Ming Zhang et al.
RETROVIROLOGY (2010)
Recombination among picornaviruses
A. N. Lukashev
REVIEWS IN MEDICAL VIROLOGY (2010)
Recombination Rate and Selection Strength in HIV Intra-patient Evolution
Richard A. Neher et al.
PLOS COMPUTATIONAL BIOLOGY (2010)
Identifying recombinants in human and primate immunodeficiency virus sequence alignments using quartet scanning
Philippe Lemey et al.
BMC BIOINFORMATICS (2009)
INDELible: A Flexible Simulator of Biological Sequence Evolution
William Fletcher et al.
MOLECULAR BIOLOGY AND EVOLUTION (2009)
The Remarkable Frequency of Human Immunodeficiency Virus Type 1 Genetic Recombination
Adewunmi Onafuwa-Nuga et al.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2009)
APOBEC3G induces a hypermutation gradient: purifying selection at multiple steps during HIV-1 replication results in levels of G-to-A mutations that are high in DNA, intermediate in cellular viral RNA, and low in virion RNA
Rebecca A. Russell et al.
RETROVIROLOGY (2009)
An Evolutionary Model-Based Algorithm for Accurate Phylogenetic Breakpoint Mapping and Subtype Prediction in HIV-1
Sergei L. Kosakovsky Pond et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
Novel HIV-1 long terminal repeat (LTR) sequences of subtype B and mosaic intersubtype B/C recombinants in North India
Ujjwal Neogi et al.
ARCHIVES OF VIROLOGY (2008)
Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis
Ari Loytynoja et al.
SCIENCE (2008)
Identifying the Important HIV-1 Recombination Breakpoints
John Archer et al.
PLOS COMPUTATIONAL BIOLOGY (2008)
Recombination confounds the early evolutionary history of human immunodeficiency virus type 1: Subtype G is a circulating recombinant form
Ana B. Abecasis et al.
JOURNAL OF VIROLOGY (2007)
Phylogenetic mapping of recombination hotspots in human immunodeficiency virus via spatially smoothed change-point processes
Vladimir N. Minin et al.
GENETICS (2007)
A modified Bayes information criterion with applications to the analysis of comparative genomic hybridization data
Nancy R. Zhang et al.
BIOMETRICS (2007)
GARD: a genetic algorithm for recombination detection
Sergei L. Kosakovsky Pond et al.
BIOINFORMATICS (2006)
Sequence determinants of breakpoint location during HIV-1 intersubtype recombination
Heather A. Baird et al.
NUCLEIC ACIDS RESEARCH (2006)
Chimpanzee reservoirs of pandemic and nonpandemic HIV-1
Brandon F. Keele et al.
SCIENCE (2006)
A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints
DP Martin et al.
AIDS RESEARCH AND HUMAN RETROVIRUSES (2005)
APE: Analyses of Phylogenetics and Evolution in R language
E Paradis et al.
BIOINFORMATICS (2004)
Hybrid origin of SIV in chimpanzees
E Bailes et al.
SCIENCE (2003)
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
K Katoh et al.
NUCLEIC ACIDS RESEARCH (2002)
Assessing a mixture model for clustering with the integrated completed likelihood
C Biernacki et al.
IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE (2000)
分享论文
