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List of works by Paul Kellam

A High HIV-1 Strain Variability in London, UK, Revealed by Full-Genome Analysis: Results from the ICONIC Project

article

A Novel Astrovirus-Like RNA Virus Detected in Human Stool

scientific article published on January 2016

A high HIV-1 strain variability in London, UK, revealed by full-genome analysis: Results from the ICONIC project

scientific article published in February 2018

A low temperature method of isolating normal human articular chondrocytes

scientific article published on 19 October 2005

A membrane topology model for human interferon inducible transmembrane protein 1.

scientific article

A novel genus in the order Picornavirales detected in human stool

scientific article published on 8 September 2015

A systematic review of definitions of extreme phenotypes of HIV control and progression

scientific article published on January 2014

A viral discovery methodology for clinical biopsy samples utilising massively parallel next generation sequencing

scientific article

A26 Transmission patterns and evolution of RSV in a community outbreak identified by genomic analysis

scientific article

A27 Using whole genome sequence data and minority variant profiles to elucidate transmission patterns during RSV household outbreaks

scientific article published on 05 March 2017

Accumulation of human-adapting mutations during circulation of A(H1N1)pdm09 influenza virus in humans in the United Kingdom.

scientific article

Accurate characterization of the IFITM locus using MiSeq and PacBio sequencing shows genetic variation in Galliformes

scientific article (publication date: 30 May 2017)

Activation of the B cell antigen receptor triggers reactivation of latent Kaposi's sarcoma-associated herpesvirus in B cells.

scientific article published on 15 May 2013

Alphavirus Restriction by IFITM Proteins

scientific article published on 24 May 2016

Amphotericin B increases influenza A virus infection by preventing IFITM3-mediated restriction

scientific article

An experimental evaluation of a loop versus a reference design for two-channel microarrays

scientific article published on 16 September 2004

Analysis of XMRV integration sites from human prostate cancer tissues suggests PCR contamination rather than genuine human infection

scientific article

Analysis of high-depth sequence data for studying viral diversity: a comparison of next generation sequencing platforms using Segminator II.

scientific article

Assessment of a 44 gene classifier for the evaluation of chronic fatigue syndrome from peripheral blood mononuclear cell gene expression

scientific article

Attacking pathogens through their hosts

scientific article

Autologous antibody capture to enrich immunogenic viruses for viral discovery

scientific article

Bat IFITM3 restriction depends on S-palmitoylation and a polymorphic site within the CD225 domain

scientific article published on 11 December 2019

Bat and pig IFN-induced transmembrane protein 3 restrict cell entry by influenza virus and lyssaviruses

scientific article published on 22 January 2015

Bim-mediated deletion of antigen-specific CD8 T cells in patients unable to control HBV infection

scientific article published on May 2008

Capturing needles in haystacks: a comparison of B-cell receptor sequencing methods.

scientific article

Characterization of Posa and Posa-like virus genomes in fecal samples from humans, pigs, rats, and bats collected from a single location in Vietnam

scientific article published on July 2017

Chicken interferon-inducible transmembrane protein 3 restricts influenza viruses and lyssaviruses in vitro

scientific article published on 25 September 2013

Coalescent Inference Using Serially Sampled, High-Throughput Sequencing Data from Intrahost HIV Infection

scientific article

Coalescent inference using serially sampled, high-throughput sequencing data from intra-host HIV infection

article

Combined Influence of B-Cell Receptor Rearrangement and Somatic Hypermutation on B-Cell Class-Switch Fate in Health and in Chronic Lymphocytic Leukemia

article

Community case clusters of Middle East respiratory syndrome coronavirus in Hafr Al-Batin, Kingdom of Saudi Arabia: a descriptive genomic study

scientific article published on 31 March 2014

Comparative analysis of the chicken IFITM locus by targeted genome sequencing reveals evolution of the locus and positive selection in IFITM1 and IFITM3

scientific article published on 05 April 2019

Comparative analysis reveals adaptive evolution of bat IFITMs and a novel antiviral determinant

scientific article published on 17 August 2019

Complete Genome Characterization of Two Wild-Type Measles Viruses from Vietnamese Infants during the 2014 Outbreak

scientific article published on 14 April 2016

Complete Genome Sequence of the WHO International Standard for HIV-1 RNA Determined by Deep Sequencing

scientific article published on 06 February 2014

Computational inference of replication and transcription activator regulator activity in herpesvirus from gene expression data

scientific article

Consensus clustering and functional interpretation of gene-expression data

scientific article

Convergent combination therapy can select viable multidrug-resistant HIV-1 in vitro

scientific article published in Nature

Correction for Kwok et al., Genomic Diversity of Epstein-Barr Virus Genomes Isolated from Primary Nasopharyngeal Carcinoma Biopsy Samples

Correction: Bat IFITM3 restriction depends on S-palmitoylation and a polymorphic site within the CD225 domain

scientific article published on 29 April 2020

Correction: Specific Capture and Whole-Genome Sequencing of Viruses from Clinical Samples.

scientific article published on 24 January 2012

Correction: Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe

scientific article published on 13 July 2017

Current research priorities in chronic fatigue syndrome/myalgic encephalomyelitis: disease mechanisms, a diagnostic test and specific treatments

scientific article

Deep sequencing of norovirus genomes defines evolutionary patterns in an urban tropical setting

scientific article published on 23 July 2014

Defining the range of pathogens susceptible to Ifitm3 restriction using a knockout mouse model

scientific article

Dendritic cells and myeloid leukaemias: plasticity and commitment in cell differentiation.

scientific article published on August 2007

Determinants of bluetongue virus virulence in murine models of disease

scientific article published on 24 August 2011

Determining the Mutation Bias of Favipiravir in Influenza Using Next-generation Sequencing

scholarly article by Daniel Goldhill et al published 31 October 2018 in Journal of Virology

Determining the Mutation Bias of Favipiravir in Influenza Using Next-generation Sequencing

Development and use of Lentiviral Vectors Pseudotyped with Influenza B Haemagglutinins: application to vaccine immunogenicity, mAb potency and sero-surveillance studies

Development of a novel human immunodeficiency virus type 1 subtyping tool, Subtype Analyzer (STAR): analysis of subtype distribution in London

scientific article published in May 2004

Different patterns of Epstein-Barr virus latency in endemic Burkitt lymphoma (BL) lead to distinct variants within the BL-associated gene expression signature

scientific article

Discovery of a polyomavirus in European badgers (Meles meles) and the evolution of host range in the family Polyomaviridae

scientific article

Disease progression despite protective HLA expression in an HIV-infected transmission pair

scientific article published on 30 June 2015

Disease-associated XMRV sequences are consistent with laboratory contamination

scientific article

Distinct genetic architectures and environmental factors associate with host response to the γ2-herpesvirus infections

scientific article published on 31 July 2020

Distribution of human herpesvirus-8 latently infected cells in Kaposi's sarcoma, multicentric Castleman's disease, and primary effusion lymphoma

scientific article

Dynamic variation of CD5 surface expression levels within individual chronic lymphocytic leukemia clones

scientific article published on 27 September 2016

Dynamics of immunoglobulin sequence diversity in HIV-1 infected individuals

scientific article published in September 2015

Easy and Accurate Reconstruction of Whole HIV Genomes from Short-Read Sequence Data

article

Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver.

scientific article published in January 2018

Elicitation of Potent Neutralizing Antibody Responses by Designed Protein Nanoparticle Vaccines for SARS-CoV-2

scientific article published on 31 October 2020

Elicitation of potent neutralizing antibody responses by designed protein nanoparticle vaccines for SARS-CoV-2

scientific article published on 12 August 2020

Emergence of a novel subclade of influenza A(H3N2) virus in London, December 2016 to January 2017.

scientific article published on February 2017

Endoplasmic reticulum degradation-enhancing α-mannosidase-like protein 1 targets misfolded HLA-B27 dimers for endoplasmic reticulum-associated degradation

scientific article

Epstein-Barr virus nuclear protein EBNA3C directly induces expression of AID and somatic mutations in B cells

scientific article published on 23 May 2016

Erratum: Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains

article

Estimating reassortment rates in co-circulating Eurasian swine influenza viruses

scientific article published on 12 September 2012

Evaluating the impact of functional genetic variation on HIV-1 control

scientific article published on 9 September 2017

Evolution of Antigen-specific B-cell Receptor Repertoires in Early SIV Infection.

scientific article

Evolution of an Eurasian avian-like influenza virus in naïve and vaccinated pigs

scientific article

Evolution of equine influenza virus in vaccinated horses

scientific article published on 6 February 2013

Evolutionary dynamics of local pandemic H1N1/2009 influenza virus lineages revealed by whole-genome analysis ⬇️

scientific article

Eye on the B-ALL: B-cell receptor repertoires reveal persistence of numerous B-lymphoblastic leukemia subclones from diagnosis to relapse.

scientific article published on 23 May 2016

Fifth mutation in human immunodeficiency virus type 1 reverse transcriptase contributes to the development of high-level resistance to zidovudine

scientific article (publication date: March 1992)

From clinical sample to complete genome: Comparing methods for the extraction of HIV-1 RNA for high-throughput deep sequencing

scientific article published on 4 August 2016

Full genome virus detection in fecal samples using sensitive nucleic acid preparation, deep sequencing, and a novel iterative sequence classification algorithm

scientific article

Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus

scientific article published on May 2013

Gammaherpesvirus lytic gene expression as characterized by DNA array

scientific article

Gene expression in peripheral blood mononuclear cells from patients with chronic fatigue syndrome

scientific article published in August 2005

Gene expression subtypes in patients with chronic fatigue syndrome/myalgic encephalomyelitis.

scientific article published in April 2008

Gene3D: comprehensive structural and functional annotation of genomes

scientific article

Generation and characterization of influenza A viruses with altered polymerase fidelity

scientific article

Genome Sequences of a Novel Vietnamese Bat Bunyavirus

scientific article published on 22 December 2016

Genome diversity of Epstein-Barr virus from multiple tumor types and normal infection

scientific article published on 18 March 2015

Genome-wide evolutionary dynamics of influenza B viruses on a global scale

scientific article published on 28 December 2017

Genome-wide innate immune responses in HIV-1-infected macrophages are preserved despite attenuation of the NF-kappa B activation pathway

scientific article published on January 2009

Genome-wide sequence analysis of Kaposi's Sarcoma-associated Herpesvirus shows diversification driven by recombination

scientific article published on 01 October 2018

Genomewide function conservation and phylogeny in the Herpesviridae

scientific article published on January 2001

Genomic diversity of Epstein-Barr virus genomes isolated from primary nasopharyngeal carcinoma biopsy samples.

scientific article

Genotyping Hepatitis B virus from whole- and sub-genomic fragments using position-specific scoring matrices in HBV STAR.

scientific article published in June 2006

Global Conformational Dynamics of HIV-1 Reverse Transcriptase Bound to Non-Nucleoside Inhibitors

scientific article

HIV-1 biological phenotype and the development of zidovudine resistance in relation to disease progression in asymptomatic individuals during treatment

scientific article published on November 1, 1992

HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences

scientific article published on 25 May 2017

Heterogeneity of the Epstein-Barr virus major internal repeat reveals evolutionary mechanisms of EBV and a functional defect in the prototype EBV strain B95-8.

scientific article published on 13 September 2017

High-throughput pipeline for de-novo assembly and drug resistance mutations identification from Next-Generation Sequencing viral data of residual diagnostic samples

Hospital outbreak of Middle East respiratory syndrome coronavirus

scientific article

Host genetic variants and gene expression patterns associated with Epstein-Barr virus copy number in lymphoblastoid cell lines.

scientific article published on 7 October 2014

Host genetics of Epstein-Barr virus infection, latency and disease

scientific article published on 27 November 2014

Host-pathogen studies in the post-genomic era

scientific article

Human Coronavirus NL63 Molecular Epidemiology and Evolutionary Patterns in Rural Coastal Kenya

scientific article published in May 2018

Human Herpesvirus Type 8 and Kaposi's Sarcoma ⬇️

scientific article published on January 1, 1998

Human Rhinovirus B and C Genomes from Rural Coastal Kenya

scientific article published on 28 July 2016

Human immunodeficiency virus Tat associates with a specific set of cellular RNAs

scientific article

Human infection with MERS coronavirus after exposure to infected camels, Saudi Arabia, 2013.

scientific article

IFITM proteins-cellular inhibitors of viral entry.

scientific article published on 28 January 2014

IFITM3 restricts the morbidity and mortality associated with influenza

scientific article

IVA: accurate de novo assembly of RNA virus genomes

scientific article

Identification and characterization of Coronaviridae genomes from Vietnamese bats and rats based on conserved protein domains

Identification of a novel human rhinovirus C type by antibody capture VIDISCA-454.

scientific article

Identification of genes differentially expressed as result of adenovirus type 5- and adenovirus type 12-transformation

scientific article

Identification of new herpesvirus gene homologs in the human genome

scientific article published on November 2002

Illicit viral DNA

scientific article published on 01 November 1997

Immediate T-Helper 17 Polarization Upon Triggering CD11b/c on HIV-Exposed Dendritic Cells.

scientific article

Incomplete genetic reconstitution of B cell pools contributes to prolonged immunosuppression after measles

scientific article published on 01 November 2019

Infectious causes of cancer and their detection

scientific article

Infectogenomics: insights from the host genome into infectious diseases

scientific article

Interferon-Induced Transmembrane Protein 1 Restricts Replication of Viruses That Enter Cells via the Plasma Membrane

scientific article published on 05 March 2019

Interferon-induced transmembrane protein-3 genetic variant rs12252-C is associated with severe influenza in Chinese individuals

scientific article

KSHV-encoded miRNAs target MAF to induce endothelial cell reprogramming

scientific article

Kaposi's sarcoma-associated herpesvirus-infected primary effusion lymphoma has a plasma cell gene expression profile

scientific article published on 18 August 2003

LEDGF/p75 functions downstream from preintegration complex formation to effect gene-specific HIV-1 integration

scientific article

Lessons from Ebola: Improving infectious disease surveillance to inform outbreak management

scientific article published on September 2015

Local evolutionary patterns of human respiratory syncytial virus derived from whole-genome sequencing

scientific article published on 21 January 2015

Marked endotheliotropism of highly pathogenic avian influenza virus H5N1 following intestinal inoculation in cats

scientific article published on 16 November 2011

Metagenomic study of the viruses of African straw-coloured fruit bats: Detection of a chiropteran poxvirus and isolation of a novel adenovirus

scientific article

Metagenomics and the molecular identification of novel viruses ⬇️

scientific article published on December 15, 2010

Microarray gene expression database: progress towards an international repository of gene expression data

scientific article

Microarray-based determination of the lytic cascade of human herpesvirus 6B.

scientific article

Modeling the association of space, time, and host species with variation of the HA, NA, and NS genes of H5N1 highly pathogenic avian influenza viruses isolated from birds in Romania in 2005-2007

scientific article published on September 2013

Molecular Epidemiology and Evolution of Influenza Viruses Circulating within European Swine between 2009 and 2013

scientific article

Molecular definition of multiple sites of antibody inhibition of malaria transmission-blocking vaccine antigen Pfs25.

scientific article published on 16 November 2017

Molecular evolution of broadly neutralizing Llama antibodies to the CD4-binding site of HIV-1

scientific article

Molecular identification of novel viruses ⬇️

scientific article published on 01 April 1998

Mouse Models of Influenza Infection with Circulating Strains to Test Seasonal Vaccine Efficacy

scientific article published on 31 January 2018

Natural Variation of Epstein-Barr Virus Genes, Proteins, and Primary MicroRNA.

scientific article

Network properties derived from deep sequencing of human B-cell receptor repertoires delineate B-cell populations

scientific article published on 06 June 2013

No evidence of XMRV or related retroviruses in a London HIV-1-positive patient cohort

scientific article

Novel porcine-like human G26P[19] rotavirus identified in hospitalized paediatric diarrhoea patients in Ho Chi Minh City, Vietnam

scientific article

Open source clinical science for emerging infections

scientific article published in January 2014

Optimisation of ex vivo memory B cell expansion/differentiation for interrogation of rare peripheral memory B cell subset responses.

scientific article published on 5 October 2017

Ordered appearance of zidovudine resistance mutations during treatment of 18 human immunodeficiency virus-positive subjects

scientific article published on January 1, 1992

PANGEA-HIV: phylogenetics for generalised epidemics in Africa

scientific article published on March 2015

PFDB: a generic protein family database integrating the CATH domain structure database with sequence based protein family resources

scientific article

Patient-specific simulation as a basis for clinical decision-making

scientific article

Permissive and restricted virus infection of murine embryonic stem cells

scientific article published on 18 July 2012

Phylogenetic analysis of murine leukemia virus sequences from longitudinally sampled chronic fatigue syndrome patients suggests PCR contamination rather than viral evolution.

scientific article

Phylogenetic studies of transmission dynamics in generalized HIV epidemics: an essential tool where the burden is greatest?

scientific article

Phylogenetic surveillance of viral genetic diversity and the evolving molecular epidemiology of human immunodeficiency virus type 1.

scientific article

Post-genomic virology: the impact of bioinformatics, microarrays and proteomics on investigating host and pathogen interactions.

scientific article

Poxvirus genomes: a phylogenetic analysis

scientific article

Pre/pro-B cells generate macrophage populations during homeostasis and inflammation.

scientific article

Quantitative detection of HIV-1 drug resistance mutations by automated DNA sequencing.

scientific article published in October 1993

RNA-seq analysis of host and viral gene expression highlights interaction between varicella zoster virus and keratinocyte differentiation.

scientific article published on 30 January 2014

Rabbit endogenous retrovirus-H encodes a functional protease

scientific article published in January 2003

Rapid HIV disease progression following superinfection in an HLA-B*27:05/B*57:01-positive transmission recipient

scientific article published on 16 January 2018

Rapid outbreak sequencing of Ebola virus in Sierra Leone identifies transmission chains linked to sporadic cases ⬇️

scientific article

Recombinant virus assay: a rapid, phenotypic assay for assessment of drug susceptibility of human immunodeficiency virus type 1 isolates.

scientific article published on January 1994

Regulation of the Epstein-Barr virus Zp promoter in B lymphocytes during reactivation from latency

scientific article

Reporting and Methodological Quality of Systematic Reviews in the Orthopaedic Literature ⬇️

scientific article published on June 5, 2013

Resistance of Transmitted Founder HIV-1 to IFITM-Mediated Restriction.

scientific article published on 09 September 2016

Resistance to ddI and sensitivity to AZT induced by a mutation in HIV-1 reverse transcriptase

scientific article

Respiratory tract samples, viral load, and genome fraction yield in patients with Middle East respiratory syndrome

scientific article published on 15 May 2014

Restriction of V3 region sequence divergence in the HIV-1 envelope gene during antiretroviral treatment in a cohort of recent seroconverters

scientific article published on 18 January 2013

Retroviral recombination can lead to linkage of reverse transcriptase mutations that confer increased zidovudine resistance.

scientific article published on February 1995

Robust Selection of Predictive Genes via a Simple Classifier

scientific article published in January 2006

Role of HIV-specific CD8(+) T cells in pediatric HIV cure strategies after widespread early viral escape.

scientific article published on 5 October 2017

Sequence Variation of Epstein-Barr Virus: Viral Types, Geography, Codon Usage, and Diseases

scientific article published on 29 October 2018

Single Amino Acid Substitutions Disrupt Tetramer Formation in the Dihydroneopterin Aldolase Enzyme ofPneumocystis carinii†

scientific article published on 01 August 1998

Specific capture and whole-genome sequencing of viruses from clinical samples

scientific article (publication date: 2011)

Specific gene expression profiles in systemic juvenile idiopathic arthritis

article

Spread, circulation, and evolution of the Middle East respiratory syndrome coronavirus

scientific article published on 18 February 2014

Structure and mechanism of monoclonal antibody binding to the junctional epitope of Plasmodium falciparum circumsporozoite protein

scientific article published on 09 March 2020

The CD225 domain of IFITM3 is required for both IFITM protein association and inhibition of influenza A virus and dengue virus replication

scientific article published on 08 May 2013

The RING-CH ligase K5 antagonizes restriction of KSHV and HIV-1 particle release by mediating ubiquitin-dependent endosomal degradation of tetherin

scientific article

The Vietnam Initiative on Zoonotic Infections (VIZIONS): A Strategic Approach to Studying Emerging Zoonotic Infectious Diseases

scientific article

The antiviral restriction factor IFN-induced transmembrane protein 3 prevents cytokine-driven CMV pathogenesis

scientific article

The evolutionary dynamics of influenza A virus adaptation to mammalian hosts.

scientific article published on 04 February 2013

The global antigenic diversity of swine influenza A viruses

scientific article

Transcriptional and functional defects of dendritic cells derived from the MUTZ-3 leukaemia line

scientific article published on July 2009

Transmission and evolution of the Middle East respiratory syndrome coronavirus in Saudi Arabia: a descriptive genomic study

scientific article published on 20 September 2013

Transmission of equine influenza virus during an outbreak is characterized by frequent mixed infections and loose transmission bottlenecks.

scientific article

Transmission patterns and evolution of respiratory syncytial virus in a community outbreak identified by genomic analysis

scientific article

Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection

scientific article published on July 2016

Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection

Universal amplification, next-generation sequencing, and assembly of HIV-1 genomes

scientific article

VIDA: a virus database system for the organization of animal virus genome open reading frames

scientific article

Viral bioinformatics: computational views of host and pathogen.

scientific article published on January 2003

Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe

scientific article

Viral population analysis and minority-variant detection using short read next-generation sequencing.

scientific article

Virus bioinformatics: databases and recent applications.

scientific article published on January 2002

Virus discovery reveals frequent infection by diverse novel members of the Flaviviridae in wild lemurs

Virus genomes reveal factors that spread and sustained the Ebola epidemic

scientific article (publication date: 12 April 2017)

Virus genomes reveal the factors that spread and sustained the West African Ebola epidemic

article published in 2016

Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains

article

Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains

Whole-genome association study of antibody response to Epstein-Barr virus in an African population: a pilot.

scientific article published on 27 November 2017

Widespread Reassortment Shapes the Evolution and Epidemiology of Bluetongue Virus following European Invasion ⬇️

scientific article published on 7 August 2015

X box binding protein XBP-1s transactivates the Kaposi's sarcoma-associated herpesvirus (KSHV) ORF50 promoter, linking plasma cell differentiation to KSHV reactivation from latency

scientific article published on 10 October 2007

X-box binding protein 1 contributes to induction of the Kaposi's sarcoma-associated herpesvirus lytic cycle under hypoxic conditions

scientific article published on 29 April 2009

X-box binding protein 1 induces the expression of the lytic cycle transactivator of Kaposi's sarcoma-associated herpesvirus but not Epstein-Barr virus in co-infected primary effusion lymphoma

scientific article published on 27 October 2010

Zidovudine resistance predicted by direct detection of mutations in DNA from HIV-infected lymphocytes ⬇️

scientific article published on February 1, 1991

Zidovudine sensitivity of human immunodeficiency viruses from high-risk, symptom-free individuals during therapy

scientific article published on 01 September 1990

Zidovudine treatment results in the selection of human immunodeficiency virus type 1 variants whose genotypes confer increasing levels of drug resistance.

scientific article

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