2015
Reproducibility of Variant Calls in Replicate Next Generation Sequencing Experiments
Qi Y, Liu X, Liu CG, Wang B, Hess KR, Symmans WF, Shi W, Pusztai L. Reproducibility of Variant Calls in Replicate Next Generation Sequencing Experiments. PLOS ONE 2015, 10: e0119230. PMID: 26136146, PMCID: PMC4489803, DOI: 10.1371/journal.pone.0119230.Peer-Reviewed Original ResearchConceptsSingle nucleotide variantsEuropean Genome-phenome ArchiveProtein kinase geneMillions of nucleotidesSame genomic DNANext-generation sequencing experimentsVariant callsGenomic locationNext-generation sequencingSequence dataSNV callsKinase geneGenomic DNANucleotide substitutionsSequencing experimentsHigh stringencyVariant allele frequencyNucleotide variantsTrue biological changeNucleotide alterationsGeneration sequencingAllele countsSequencing errorsBreast cancer samplesAllele frequencies
2004
Breast cancer biomarkers and molecular medicine: part II
Ross JS, Linette GP, Stec J, Clark E, Ayers M, Leschly N, Symmans WF, Hortobagyi GN, Pusztai L. Breast cancer biomarkers and molecular medicine: part II. Expert Review Of Molecular Diagnostics 2004, 4: 169-188. PMID: 14995904, DOI: 10.1586/14737159.4.2.169.Peer-Reviewed Original ResearchMeSH KeywordsBiomarkers, TumorBreast NeoplasmsCell Adhesion MoleculesDNADrug Resistance, MultipleEndopeptidasesFemaleGene Expression ProfilingGenes, Tumor SuppressorHumansOncogenesPharmacogeneticsPrognosisProto-Oncogene Proteins c-bcl-2Receptors, EstrogenReceptors, ProgesteroneTelomeraseTranscription FactorsConceptsInvasion-associated proteinsMolecular medicineTumor suppressor geneTranscriptional profilingTranscription factorsDNA repairCell adhesion moleculeDrug resistance proteinsGenomic microarraysApoptosis regulatorSuppressor geneHormone receptor proteinsReceptor proteinBreast cancer biomarkersResistance proteinCancer biomarkersProteinBreast cancer prognostic factorsAdhesion moleculesCancer prognostic factorsPrognostic factorsTherapy responseGenesMethylationTelomerase