2017
UroMark—a urinary biomarker assay for the detection of bladder cancer
Feber A, Dhami P, Dong L, de Winter P, Tan W, Martínez-Fernández M, Paul D, Hynes-Allen A, Rezaee S, Gurung P, Rodney S, Mehmood A, Villacampa F, de la Rosa F, Jameson C, Cheng K, Zeegers M, Bryan R, James N, Paramio J, Freeman A, Beck S, Kelly J. UroMark—a urinary biomarker assay for the detection of bladder cancer. Clinical Epigenetics 2017, 9: 8. PMID: 28163793, PMCID: PMC5282868, DOI: 10.1186/s13148-016-0303-5.Peer-Reviewed Original ResearchConceptsDetection of bladder cancerEpigenetic alterationsSequencing assayNovel high-throughputBladder cancerBackgroundBladder cancerNext-generation sequencing assayUrinary biomarkersDNA methylationMuscle-invasive bladder cancerUrinary biomarker assaysSediment DNAAnalysis pipelineVoided urine samplesDetection of BCPrimary BCHigh-throughputCystoscopic examinationVoided urineDNAIndependent cohortAssayBiomarker panelDiagnosed BCCancer
2016
CSN1 Somatic Mutations in Penile Squamous Cell Carcinoma
Feber A, Worth D, Chakravarthy A, de Winter P, Shah K, Arya M, Saqib M, Nigam R, Malone P, Tan W, Rodney S, Freeman A, Jameson C, Wilson G, Powles T, Beck S, Fenton T, Sharp T, Muneer A, Kelly J. CSN1 Somatic Mutations in Penile Squamous Cell Carcinoma. Cancer Research 2016, 76: 4720-4727. PMID: 27325650, PMCID: PMC5302160, DOI: 10.1158/0008-5472.can-15-3134.Peer-Reviewed Original ResearchConceptsWhole-exome sequencingResequencing of candidate genesPenile cancerMiRNA-mediated gene silencingCytoplasmic P-bodiesCopy-number informationAnalysis of somatic alterationsSomatic mutation landscapeDevelopment of penile cancerPenile squamous cell carcinomaTargeted resequencingCandidate genesDNA methylationGene silencingHPV-negative diseaseP-bodiesRecurrent mutationsLandscape of alterationsAPOBEC mutational signaturesSquamous cell carcinomaGermline DNASomatic alterationsMutation dataMutational signaturesGenetic alterations
2015
Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer
Feber A, Arya M, de Winter P, Saqib M, Nigam R, Malone P, Tan W, Rodney S, Lechner M, Freeman A, Jameson C, Muneer A, Beck S, Kelly J. Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer. Clinical Cancer Research 2015, 21: 1196-1206. PMID: 25538261, PMCID: PMC4351916, DOI: 10.1158/1078-0432.ccr-14-1656.Peer-Reviewed Original ResearchMeSH KeywordsCell Transformation, NeoplasticCell Transformation, ViralCluster AnalysisComputational BiologyCpG IslandsDNA MethylationEpigenesis, GeneticGene Expression ProfilingGene Expression Regulation, NeoplasticHumansLymph NodesLymphatic MetastasisMaleNeoplasm MetastasisPapillomaviridaePapillomavirus InfectionsPenile NeoplasmsRepetitive Sequences, Nucleic AcidConceptsHead and neck squamous cell carcinomaCervical squamous cell carcinomaSquamous cell carcinomaPenile cancerHPV statusEpigenetic alterationsCell carcinomaMethylation variable positionsEpi-signatureLymph node metastases markerNeck squamous cell carcinomaHPV-driven malignanciesTumor supressor geneLymph node metastasisMarkers of metastasisPredictors of survivalGenome-wide methylation arrayHPV-induced tumorigenesisHPV infectionRare malignancyOverall survivalQ-MSPNode metastasisTumor tissuesHPV