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Shannon McWeeney

Professor and Division Head (Bioinformatics and computational biology not elsewhere classified)

Portland, Oregon

Publications

  • ERBB2/HER2 mutations are transforming and therapeutically targetable in leukemia
  • Clinical resistance to crenolanib in acute myeloid leukemia due to diverse molecular mechanisms
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Figure from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Figure from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Supplementary Table from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Graph Structured Neural Networks for Perturbation Biology
  • Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Targeted RNA editing in brainstem alleviates respiratory dysfunction in a mouse model of Rett syndrome
  • Data from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Comparison and validation of the 2022 European LeukemiaNet guidelines in acute myeloid leukemia
  • Integrated analysis of patient samples identifies biomarkers for venetoclax efficacy and combination strategies in acute myeloid leukemia
  • Data Integration and Reproducibility for High-Throughput Transcriptomics
  • Multi-omic network signatures of disease
  • CHALLENGES IN SECONDARY ANALYSIS OF HIGH THROUGHPUT SCREENING DATA
  • Systems immunogenetics of vaccines
  • Influenza Vaccination of Pregnant Women: Attitudes and Behaviors of Oregon Physician Prenatal Care Providers
  • A systems framework for vaccine design
  • Functional and genomic context in pathway analysis of GWAS data
  • Cytomegalovirus miRNAs Target Secretory Pathway Genes to Facilitate Formation of the Virion Assembly Compartment and Reduce Cytokine Secretion
  • Selection for Drinking in the Dark Alters Brain Gene Coexpression Networks
  • Protein co-expression network analysis (ProCoNA)
  • The genetics of gene expression in complex mouse crosses as a tool to study the molecular underpinnings of behavior traits
  • Genetic factors involved in risk for methamphetamine intake and sensitization
  • Human Mycobacterium tuberculosis CD8 T Cell Antigens/Epitopes Identified by a Proteomic Peptide Library
  • Androgen Receptor Promotes Ligand-Independent Prostate Cancer Progression through c-Myc Upregulation
  • Comparison of methods to identify aberrant expression patterns in individual patients: augmenting our toolkit for precision medicine
  • Limited Clinical Utility of a Genetic Risk Score for the Prediction of Fracture Risk in Elderly Subjects
  • Oncogenic CSF3R Mutations in Chronic Neutrophilic Leukemia and Atypical CML
  • Copy Number Variation Analysis in 98 Individuals with PHACE Syndrome
  • Modeling Host Genetic Regulation of Influenza Pathogenesis in the Collaborative Cross
  • Corrigendum: The BioPAX community standard for pathway data sharing
  • Utilizing RNA-Seq data for de novo coexpression network inference
  • Gene networks and haloperidol-induced catalepsy
  • Genes, behavior and next-generation RNA sequencing
  • HitWalker: variant prioritization for personalized functional cancer genomics
  • Identification of Cellular Interactions in the Tumor Immune Microenvironment Underlying CD8 T Cell Exhaustion
  • Discovery and characterization of targetable NTRK point mutations in hematologic neoplasms
  • REST corepressors RCOR1 and RCOR2 and the repressor INSM1 regulate the proliferation–differentiation balance in the developing brain
  • Recurrent cyclin D2 mutations in myeloid neoplasms
  • Teaching data science fundamentals through realistic synthetic clinical cardiovascular data
  • LSD1 activates a lethal prostate cancer gene network independently of its demethylase function
  • Synthetic lethality of TNK2 inhibition in PTPN11-mutant leukemia
  • Baseline T cell immune phenotypes predict virologic and disease control upon SARS-CoV infection in Collaborative Cross mice
  • Data from Luxeptinib (CG-806) Targets FLT3 and Clusters of Kinases Operative in Acute Myeloid Leukemia
  • Just how transformative will AI/ML be for immuno-oncology?
  • Microcephaly Genes and Risk of Late-onset Alzheimer Disease
  • Mapping cellular transcriptosomes in autopsied Alzheimer's disease subjects and relevant animal models
  • Protein Database and Quantitative Analysis Considerations when Integrating Genetics and Proteomics to Compare Mouse Strains
  • Translational gene mapping of cognitive decline
  • Consensus Framework for Exploring Microarray Data Using Multiple Clustering Methods
  • Convergence of Divergent Tumors: A Systems Biology Approach of Tumor-specific Signaling
  • Localization of TFIIB binding regions using serial analysis of chromatin occupancy
  • Occupancy Classification of Position Weight Matrix-Inferred Transcription Factor Binding Sites
  • On the Integration of Alcohol-Related Quantitative Trait Loci and Gene Expression Analyses
  • A DNA methylation microarray-based study identifies ERG as a gene commonly methylated in prostate cancer
  • Genetic diversity and striatal gene networks: focus on the heterogeneous stock-collaborative cross (HS-CC) mouse
  • Similar gene expression profiles do not imply similar tissue functions
  • SNPs matter: impact on detection of differential expression
  • Brain size genes and risk of dementia
  • A Simulation Framework to Investigate in vitro Viral Infection Dynamics
  • A simulation framework to investigate in vitro viral infection dynamics
  • Detection of Expression Quantitative Trait Loci in Complex Mouse Crosses: Impact and Alleviation of Data Quality and Complex Population Substructure
  • Differential Network Analysis Reveals Genetic Effects on Catalepsy Modules
  • Genetics, Behavior, and Brain Dopamine Systems
  • High throughput sequencing in mice: a platform comparison identifies a preponderance of cryptic SNPs
  • A Viral microRNA Down-Regulates Multiple Cell Cycle Genes through mRNA 5′UTRs
  • Evidence for linkage and association to alcohol dependence on chromosome 19
  • Computational Detection of Alternative Exon Usage
  • Complex Genetics of Interactions of Alcohol and CNS Function and Behavior
  • Distribution of Menin-Occupied Regions in Chromatin Specifies a Broad Role of Menin in Transcriptional Regulation
  • The Plasmodium genome database
  • Conserved host response to highly pathogenic avian influenza virus infection in human cell culture, mouse and macaque model systems
  • Evaluating Gene Expression in C57BL/6J and DBA/2J Mouse Striatum Using RNA-Seq and Microarrays
  • Deoxyribonucleic Acid Microarray Analysis of Gene Expression Pattern in the Arcuate Nucleus/Ventromedial Nucleus of Hypothalamus during Lactation
  • P1-227 Gene expression profiles of transcripts in amyloid precursor protein transgenic mice Up-regulation of mitochondrial metabolism and apoptotic genes is an early cellular change in Alzheimer's disease
  • Defining the CREB RegulonA Genome-Wide Analysis of Transcription Factor Regulatory Regions
  • DNA Microarray and Proteomic Strategies for Understanding Alcohol Action
  • Renal Gene and Protein Expression Signatures for Prediction of Kidney Disease Progression
  • MIFlowCyt: The minimum information about a flow cytometry experiment
  • Codon usage bias and base composition in MHC genes in humans and common chimpanzees
  • TandTRAQ: an open-source tool for integrated protein identification and quantitation
  • The BioPAX community standard for pathway data sharing
  • The BioPAX community standard for pathway data sharing
  • Locus and population specific evolution in HLA class II genes
  • Defining the CREB RegulonA Genome-Wide Analysis of Transcription Factor Regulatory Regions
  • Identification of  -catenin binding regions in colon cancer cells using ChIP-Seq
  • An Antisense Transcript Induced by Wnt/beta-Catenin Signaling Decreases E2F4

Shannon McWeeney's public data