2009
Building Networks with Microarray Data
Broom BM, Rinsurongkawong W, Pusztai L, Do KA. Building Networks with Microarray Data. Methods In Molecular Biology 2009, 620: 315-343. PMID: 20652510, DOI: 10.1007/978-1-60761-580-4_10.Peer-Reviewed Original ResearchMeSH KeywordsAnalysis of VarianceBayes TheoremCluster AnalysisGene Expression ProfilingGene Regulatory NetworksHumansOligonucleotide Array Sequence AnalysisConceptsDetailed differential equation modelsDifferential equation modelAvailable breast cancer dataMathematical detailsNetwork modelBayesian network modelCo-expression network analysisMicroarray dataGene expression data setsFalse interactionsBayesian networkGene interaction networksData setsNumber of samplesPlausible networksRobust networkBreast cancer dataExpression data setsMicroarray data setsGene clusterGene shavingGene interactionsInteraction networksPreliminary clusteringSubsequent biological experiments
2002
Global Gene Expression Changes During Neoadjuvant Chemotherapy for Human Breast Cancer
Buchholz TA, Stivers DN, Stec J, Ayers M, Clark E, Bolt A, Sahin AA, Symmans WF, Hess KR, Kuerer HM, Valero V, Hortobagyi GN, Pusztai L. Global Gene Expression Changes During Neoadjuvant Chemotherapy for Human Breast Cancer. The Cancer Journal 2002, 8: 461-468. PMID: 12500855, DOI: 10.1097/00130404-200211000-00010.Peer-Reviewed Original ResearchConceptsCore biopsy specimensBiopsy specimensBreast cancerNeoadjuvant chemotherapyGlobal gene expression changesGene expression changesGood pathological responsePrimary breast cancerExpression changesHuman breast cancerHuman solid tumorsPoor respondersPosttreatment specimensPathological responseIndividual patientsChemotherapyPatientsSerial samplesSolid tumorsExpression profilesIndividual tumorsPretreatment samplesDifferent tumorsTumorsDifferent patients
2001
Factors predictive of outcome in patients with breast cancer refractory to neoadjuvant chemotherapy.
Buchholz T, Hill B, Tucker S, Frye D, Kuerer H, Buzdar A, McNeese M, Singletary S, Ueno N, Pusztai L, Valero V, Hortobagyi G. Factors predictive of outcome in patients with breast cancer refractory to neoadjuvant chemotherapy. The Cancer Journal 2001, 7: 413-20. PMID: 11693900.Peer-Reviewed Original ResearchConceptsEstrogen receptor-negative diseaseReceptor-negative diseaseLocal-regional recurrenceLocal-regional recurrence ratePositive lymph nodesNeoadjuvant chemotherapyLymph nodesOverall survivalProgressive diseaseRecurrence rateLymph node-negative diseaseSignificant poorer overall survivalEstrogen receptor-positive diseaseBreast cancer refractoryInvolved lymph nodesNegative lymph nodesReceptor-positive diseaseNode-negative diseasePostoperative radiation therapyInitial clinical stageCox regression analysisBreast cancer patientsPoor overall survivalAdjuvant chemotherapyCancer refractory