grant
Metastatic tracking of cancer subclones for collateral lethality prediction
Organization UNIVERSITY OF PITTSBURGH AT PITTSBURGHLocation PITTSBURGH, UNITED STATESPosted 1 Aug 2025Deadline 31 Jul 2029
NIHUS FederalResearch GrantFY2025AddressAlgorithmsAreaAscitesAutomobile DrivingAutopsyBiologicalBiopsy SampleBiopsy SpecimenBloodBlood Reticuloendothelial SystemBody TissuesBreast CancerBreast Cancer cell lineBreast tumor cell lineCRISPR interferenceCRISPR-dCas9-mediated repressionCRISPR/dCas9 interferenceCRISPR/dCas9-mediated transcriptional inhibitionCRISPRiCancer BiologyCancer CauseCancer EtiologyCancersCessation of lifeClinicClinicalClinical ResearchClinical StudyClustered Regularly Interspaced Short Palindromic Repeats interferenceCollaborationsCollectionComplexComputational BiologyComputational TechniqueComputational toolkitComputer AnalysisConsentDNADNA AlterationDNA Sequence AlterationDataData SetDeathDeletion of DNA SequencesDeoxyribonucleic AcidDependenceDiseaseDisease ProgressionDisease ResistanceDisorderDrugsEffectivenessEnsureEvolutionExhibitsFrequenciesGene ArrangementGene DeletionGene OrderGene PositionGeneralized GrowthGenesGeneticGenetic AlterationGenomeGenome InstabilityGenomic InstabilityGenomicsGrowthHospicesHourHumanInterdisciplinary ResearchInterdisciplinary StudyInterventionJointsLaboratoriesLeadLinkMachine LearningMalignant Breast NeoplasmMalignant CellMalignant NeoplasmsMalignant TumorMedicationMentorshipMetastasisMetastasizeMetastatic LesionMetastatic MassMetastatic NeoplasmMetastatic TumorMetastatic breast cancerMethodsModelingModern ManMolecularMultidisciplinary CollaborationMultidisciplinary ResearchMultiomic DataNeoplasm MetastasisNormal TissueNormal tissue morphologyOncologyOncology CancerOrganoidsPDX modelPathway interactionsPatient derived xenograftPatient outcomePatient-Centered OutcomesPatient-Focused OutcomesPatientsPatternPb elementPharmaceutical PreparationsPhylogenetic AnalysisPhylogeneticsPhylogenyPhysiciansPopulationPrecision cancer therapyPrecision cancer treatmentPrecision therapeuticsPrimary NeoplasmPrimary TumorProcessReadabilityRecurrenceRecurrentResearchResistanceRoleSamplingScientistSecondary NeoplasmSecondary TumorSequence AlterationSequence DeletionShapesStructureStudy SkillsSurvival RateTechniquesTherapeuticTimeTissue BanksTissue CollectionTissue DonationsTissue GrowthTissue SampleTissue repositoryTissuesTrainingTreatment ProtocolsTreatment RegimenTreatment ScheduleTreesUniversitiesValidationWorkabdominal dropsyadvanced breast canceradvanced stage breast canceranalyzing longitudinalbiologiccancer cellcancer cell genomecancer genomecancer metastasiscancer typeclinically actionablecomputational analysescomputational analysiscomputational toolboxcomputational toolscomputational toolsetcomputer analysescomputer biologycomputerized toolsdata integrationdirect applicationdisease heterogeneitydrivingdrug/agentexperimentexperimental researchexperimental studyexperimentsgene deletion mutationgene interactiongenomic alterationgenomic datagenomic datasetgenomic deletiongenomic variationheavy metal Pbheavy metal leadhospice environmenthydroperitoniahydrops abdominisimprovedinnovateinnovationinnovativeknock-downknockdownliquid biopsylongitudinal analysismachine based learningmachine learning based methodmachine learning based pipelinemachine learning methodmachine learning methodologiesmachine learning pipelinemalignancymalignant breast tumormetastatic breast tumormetastatic mammary cancermetastatic mammary tumormortalitymultidisciplinarymultiple omic datanecropsyneoplasm/cancernovelontogenypathwaypatient derived xenograft modelpatient oriented outcomesperitoneal dropsyperitoneal exudatepostmortempre-trained transformerprecision anticancer therapyprecision cancer therapeuticprecision therapiesprecision treatmentprogramsrepressing CRISPR-dCas9 systemresilienceresilientresistance to diseaseresistance to therapyresistantresistant diseaseresistant to diseaseresistant to therapyshRNAshort hairpin RNAskillssmall hairpin RNAsocial rolestructural mutationstructural variantstructural variationsuccesstargeted drug therapytargeted drug treatmentstargeted therapeutictargeted therapeutic agentstargeted therapytargeted treatmenttherapeutic resistancetherapeutic targettherapy resistanttooltransformer architecturetransformer based modeltransformer modeltreatment researchtreatment resistancetreatment strategytumortumor cell metastasistumor genomevalidations
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PROJECT SUMMARY/ABSTRACT
Late-stage metastatic breast cancer remains a leading cause of cancer-related deaths, largely due to genomic
instability driving tumor evolution and therapeutic resistance. While DNA structural variations (SVs) are known
to be crucial in this process, existing tools for tracking these changes across tumor subclones and…
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