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Investigation of a Cluster of Sequence Type 22 Methicillin-Resistant Staphylococcus aureus Transmission in a Community Setting

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Genomic surveillance reveals low prevalence of livestock-associated methicillin-resistant Staphylococcus aureus in the East of England

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Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events

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Complex Routes of Nosocomial Vancomycin-Resistant Enterococcus faecium Transmission Revealed by Genome Sequencing`

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RPinecone: Define sub-lineages of a clonal expansion via a phylogenetic tree

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One Health genomic surveillance of Escherichia coli demonstrates distinct lineages and mobile genetic elements in isolates from humans versus livestock

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Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

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Prospective genomic surveillance of meticillin-resistant Staphylococcus aureus (MRSA) associated with bloodstream infection, England, 1 October 2012 to 30 September 2013

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Detection of vancomycin-resistant Enterococcus faecium hospital-adapted lineages in municipal wastewater treatment plants indicates widespread distribution and release into the environment

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Revised Interpretation of the Hain Lifescience GenoType MTBC To Differentiate Mycobacterium canettii and Members of the Mycobacterium tuberculosis Complex

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Genomic identification of cryptic susceptibility to penicillins and β-lactamase inhibitors in methicillin-resistant Staphylococcus aureus

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Mycobacterium tuberculosis lineage 1 genetic diversity in Pará, Brazil, suggests common ancestry with east-African isolates potentially linked to historical slave trade

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Transient Silencing of Antibiotic Resistance by Mutation Represents a Significant Potential Source of Unanticipated Therapeutic Failure

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Mathematical modelling for antibiotic resistance control policy: do we know enough?

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The circulating SARS-CoV-2 spike variant N439K maintains fitness while evading antibody-mediated immunity

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Rapid feedback on hospital onset SARS-CoV-2 infections combining epidemiological and sequencing data

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MAJORA: Continuous integration supporting decentralised sequencing for SARS-CoV-2 genomic surveillance

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Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England

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Defining metrics for whole-genome sequence analysis of MRSA in clinical practice

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Ferric Citrate Regulator FecR Is Translocated across the Bacterial Inner Membrane via a Unique Twin-Arginine Transport-Dependent Mechanism

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Genomic Surveillance of Methicillin-resistant Staphylococcus aureus: A Mathematical Early Modeling Study of Cost-effectiveness

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Feasibility of informing syndrome-level empiric antibiotic recommendations using publicly available antibiotic resistance datasets [version 2; peer review: 2 approved, 1 approved with reservations]

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Quantifying acquisition and transmission of Enterococcus faecium using genomic surveillance

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Definition of a genetic relatedness cutoff to exclude recent transmission of meticillin-resistant Staphylococcus aureus: a genomic epidemiology analysis

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Transmission of SARS-CoV-2 Lineage B.1.1.7 in England: Insights from linking epidemiological and genetic data

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Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies

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SARS-CoV-2 evolution during treatment of chronic infection

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SARS-CoV-2 B.1.1.7 sensitivity to mRNA vaccine-elicited, convalescent and monoclonal antibodies

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Recurrent emergence of SARS-CoV-2 spike deletion H69/V70 and its role in the Alpha variant B.1.1.7

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Genomic epidemiology of the SARS-CoV-2 epidemic in Zimbabwe: Role of international travel and regional migration in spread

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Evaluating the Effects of SARS-CoV-2 Spike Mutation D614G on Transmissibility and Pathogenicity

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Early analysis of a potential link between viral load and the N501Y mutation in the SARS-COV-2 spike protein

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Changes in symptomatology, reinfection, and transmissibility associated with the SARS-CoV-2 variant B.1.1.7: an ecological study

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Changes in symptomatology, re-infection and transmissibility associated with SARS-CoV-2 variant B.1.1.7: An ecological study

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Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England

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Defining nosocomial transmission of Escherichia coli and antimicrobial resistance genes: a genomic surveillance study

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Key variables affecting genetic distance calculations in genomic epidemiology

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Hospital admission and emergency care attendance risk for SARS-CoV-2 delta (B.1.617.2) compared with alpha (B.1.1.7) variants of concern: a cohort study

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Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission

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Genomic assessment of quarantine measures to prevent SARS-CoV-2 importation and transmission

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Evaluating the effectiveness of rapid SARS-CoV-2 genome sequencing in supporting infection control teams: the COG-UK hospital-onset COVID-19 infection study

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PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies

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The 2021 WHO catalogue of Mycobacterium tuberculosis complex mutations associated with drug resistance: a genotypic analysis

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Effectiveness of rapid SARS-CoV-2 genome sequencing in supporting infection control for hospital-onset COVID-19 infection: Multicentre, prospective study

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Multi-Drug Resistant Staphylococcus aureus Carriage in Abattoir Workers in Busia, Kenya

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Characteristics of Staphylococcus aureus Isolated from Patients in Busia County Referral Hospital, Kenya

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Improved Accuracy of Antibiotic Resistance Determination from Enterococcus faecium Whole-Genome Sequences

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Impact of a new hospital with close to 100% single-occupancy rooms on environmental contamination and incidence of vancomycin-resistant Enterococcus faecium colonization or infection: a genomic surveillance study

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Antibiotic resistance determination using Enterococcus faecium whole-genome sequences: a diagnostic accuracy study using genotypic and phenotypic data

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Influence of Behavioral Thermoregulation on the Use of Vertical Surfaces by Iberian Wall Lizards Podarcis hispanica

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Testing Hypotheses of Correlated Evolution Using Phylogenetically Independent Contrasts: Sensitivity to Deviations from Brownian Motion

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Reconstructing Ancestral Trait Values Using Squared-Change Parsimony

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Covariation of Life-History Traits in Lacertid Lizards: A Comparative Study

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Territorial intrusion risk and antipredator behaviour: a mathematical model

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Using gene ontology on genome-scale studies to find significant associations of biologically relevant terms to groups of genes

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An Approach to Inferring Transcriptional Regulation Among Genes From Large-Scale Expression Data

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Gene expression data preprocessing

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The Use of Go Terms to Understand the Biological Significance of Microarray Differential Gene Expression Data

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Molecular Signatures from Gene Expression Data

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Gene expression analysis of chromosomal regions with gain or loss of genetic material detected by comparative genomic hybridization

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DNMAD: web-based diagnosis and normalization for microarray data

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FatiGO: a web tool for finding significant associations of Gene Ontology terms with groups of genes

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New challenges in gene expression data analysis and the extended GEPAS

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Expression Profiling of T-Cell Lymphomas Differentiates Peripheral and Lymphoblastic Lymphomas and Defines Survival Related Genes

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Supervised Methods with Genomic Data: a Review and Cautionary View

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Discovering molecular functions significantly related to phenotypes by combining gene expression data and biological information

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GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data

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GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest

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Flexible and Accurate Detection of Genomic Copy-Number Changes from aCGH

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A response to Yu et al. "A forward-backward fragment assembling algorithm for the identification of genomic amplification and deletion breakpoints using high-density single nucleotide polymorphism (SNP) array", BMC Bioinformatics 2007, 8: 145

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Levels of p27kip1 determine Aplidin sensitivity

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Asterias: integrated analysis of expression and aCGH data using an open-source, web-based, parallelized software suite

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Molecular heterogeneity in chronic lymphocytic leukemia is dependent on BCR signaling: clinical correlation

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ADaCGH: A Parallelized Web-Based Application and R Package for the Analysis of aCGH Data

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Genomic Profiling of Circulating Plasma RNA for the Analysis of Cancer

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SignS: a parallelized, open-source, freely available, web-based tool for gene selection and molecular signatures for survival and censored data

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PaLS: filtering common literature, biological terms and pathway information

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Mecp2-Null Mice Provide New Neuronal Targets for Rett Syndrome

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Detection of recurrent copy number alterations in the genome: taking among-subject heterogeneity seriously

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Transcription Initiation Activity Sets Replication Origin Efficiency in Mammalian Cells

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Pomelo II: finding differentially expressed genes

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RJaCGH: Bayesian analysis of aCGH arrays for detecting copy number changes and recurrent regions

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Identification of Tumor-associated Autoantigens for the Diagnosis of Colorectal Cancer in Serum Using High Density Protein Microarrays

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Genomic copy number alterations in cancer: high-resolution analysis of the NCI-60 panel

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Abstract 1685: Identification of PDGFR-a as a predictive biomarker for response to Zalypsis(R)

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waviCGH: a web application for the analysis and visualization of genomic copy number alterations

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Identification of MST1/STK4 and SULF1 proteins as autoantibody targets for the diagnosis of colorectal cancer by using phage microarrays

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CNVassoc: Association analysis of CNV data using R

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Functionally opposing effects of testosterone on two different types of parasite: implications for the immunocompetence handicap hypothesis

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miRNA expression in diffuse large B-cell lymphoma treated with chemoimmunotherapy

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An optimized predictor panel for colorectal cancer diagnosis based on the combination of tumor-associated antigens obtained from protein and phage microarrays

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Finding common regions of alteration in copy number data

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A Bayesian HMM with random effects and an unknown number of states for DNA copy number analysis

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An Epistatic Interaction between the PAX8 and STK17B Genes in Papillary Thyroid Cancer Susceptibility

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Correction: An Epistatic Interaction between the PAX8 and STK17B Genes in Papillary Thyroid Cancer Susceptibility

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Levels of active tyrosine kinase receptor determine the tumor response to Zalypsis

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Genome wide association study identifies a novel putative mammographic density locus at 1q12-q21

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Identifying Restrictions in the Order of Accumulation of Mutations during Tumor Progression: Effects of Passengers, Evolutionary Models, and Sampling

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ADaCGH2: parallelized analysis of (big) CNA data

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OncoSimulR: genetic simulation of cancer progression with arbitrary epistasis and mutator genes

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Computational Biology and Bioinformatics (BCB)

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