Graduate Education in the Department of Pathology - PDF document

Graduate Education in the Department of
Graduate Education in the Department of Pathology2018-2019MOLECULAR ONCOLOGYAND TUMOR IMMUNOLOGY TRAINING PROGRAMDEPARTMENT OF PATHOLOGY550 First AvenueMedical Sciences Building, 5th FloorNew York, NY 10016molecular-oncology-and-immunologyCover Image: Lymphocytic Inltrate in Pancreatic Adenocarcinoma (George Miller lab)MOLECULAR ONCOLOGY AND TUMOR IMMUNOLOGY (MOTI)Molecular Oncology and Tumor Immunology (MOTI) is an integrated program focusing on Cancer Biology, Tumor Immunology, and the interface between these disciplines. The program is broadly dened, with a major emphasis on the intersection across related disciplines. It is a well-established program, with an extensive and experienced faculty.We encourage you to review the detailed description of the MOTI graduate training program contained in this booklet and to contact the faculty and program advisors if you want to learn more about it.OVERVIEWEnormous advances have been made in recent years in understanding the underlying molecular, cellular, and genetic causes of human cancer. Of particular importance has been the realization of the interrelationships between oncogenesis, inammation, and innate and adaptive immunity. The Molecular Oncology and Tumor Immunology (MOTI) Program oers unique training at the interface between cancer biology and immunology. Coursework provides students with a solid foundation in all aspects of modern cancer biology, the immune system, and the interrelationship between the two disciplines, with an emphasis on molecular, genetic, cell biological and pathophysiological aspects of cancer and immunity, as well as translational discovery and clinical cancer biology. Research projects in the Program emphasize the study of animal models and human disease as well as molecular genetic and cell biological approaches. Laboratory research opportunities run the gamut of basic studies of cancer cell biology, such as cell cycle control, the function of oncogenes and tumor suppressors, regulation of protein degradation, maintenance of genome and chromosomal integrity, analysis of the nature and function of cancer stem cells, and regulation of gene expression and signal transduction pathways; basic studies of tumor progression over a wide range of cancer models including breast, prostate, bladder, and pancreatic cancer, melanoma, neuroblastoma and leukemias; and more applied approaches to cancer and immunity, such as targeted tumor cell killing, tumor gene therapy, production of anti-tumor vaccines, and immunological and molecular approaches to cancer therapy. The program brings together investigators from across the School of Medicine, who employ cutting edge tools of molecular biology and genetics, sophisticated imaging technologies, and genomewide genetic, chemical, and proteomic analysis of cancer and immunity.The program is administered in the Department of Pathology, taking full advantage of bein

g at the interface of the basic and cli
g at the interface of the basic and clinical research eorts of the department, while drawing its faculty from across many departments and institutes in the School of Medicine. LEADERSHIPYou may also want to visit the Department of Pathology website at:www.med.nyu.edu/pathology/education/graduate-programs/molecu-lar-oncology-and-immunologyCo-DirectorWilliam L. Carroll, MDWilliam.Carroll@nyumc.org212-263-3019DirectorDavid E. Levy, PhDDavid.Levy@nyumc.org212-263-8192Graduate AdvisorTony Huang, PhDTony.Huang@nyumc.org212-263-9046MOLECULAR ONCOLOGY AND TUMOR IMMUNOLOGY PROGRAM CURRICULUM OUTLINEStudents spend the rst year taking Sackler Institute required courses and participating in three laboratory rotations. In addition, courses in Topics in Molecular Biology, Intro to Immunology, Molecular Oncology, Biostatistics and Exploratory Data Analysis, Cell Biology and Translating Cancer Discovery are required by this program and must be taken within the rst two years.In the second year, students continue to take courses to fulll their credit requirements and begin formal research in the laboratory they have selected for their dissertation projects. At the end of the second year, students write a proposal and take an oral qualifying examination in molecular oncology and immunology, which is read by their pre-thesis committee. Students continue to meet with this committee at least once per year until their thesis research is completed. Throughout their tenure within the Program, students are expected to attend the Work-In-Progress Series, Cancer Center Seminar, Immunology Seminar, and others being oered at NYU Langone Health.COURSESCOURSE NAMEDIRECTOR(S)SEMESTERIntroduction to ResearchAngus C. Wilson, PhDFallTopics in Molecular BiologyTim Requarth, PhDFallIntroduction to ImmunologyAlan Frey, PhDFallTranslating Cancer Discovery into Clinical Practice (Prerequisite: Molecular Oncology)William L. Carroll, MDFallTopics in BioinformaticsStuart M. Brown, PhDDavid Fenyo, PhDFallResearch in PathologyTony T. Huang, PhDFallCell BiologyPamela Cowin, PhDSpringBiostatistics and Exploratory Data Analysis Introduction to BiostatisticsItai Yanai, PhDLorna E. Thorpe,MPH, PhDSpringMolecular OncologyDavid E. Levy, PhDSpringAdvanced ImmunologyJuan J. Lafaille, PhDSpringStem Cell BiologyE. Jane AlbertHubbard, PhDSpringProtein Modications in Cell SignalingTony T. Huang, PhDSpringSeminar in ImmunologyStefan Feske, MDSergei B. Koralov, PhDFall/SpringWork in Progress (Seminar in Pathology)David E. Levy, PhDFall/SpringCancer Center SeminarRecommended SeminarsCancer Center and/or Immunology SeminarsRecommended CoursesAdvanced Immunology (Spring)Protein Modications in CellSignaling (Spring)Topics in Molecular Biology (Fall)Introduction to Immunology (Fall)Translating Cancer Discovery into Clinical Practice (Prerequisite: Molecular Oncology) (Fall)Biostatistics & Explo

ratory Data Analysis (Spring)Molecular
ratory Data Analysis (Spring)Molecular Oncology (Spring)Cell Biology (Spring)Research in PathologyWork in Progress (Student/Postdoc seminar series)Only second year and beyondRequired Courses for the MOTI ProgramIN ADDITION TO THE STANDARD SACKLER CURRICULUM, THE FOLLOWING SPECIFIC COURSES ARE REQUIRED FOR MOTI STUDENTS:MOLECULAR ONCOLOGY AND TUMOR IMMUNOLOGY FACULTYIannis Aifantis, PhDCancer, immunology, stem cell biology, epigenetic regulation, leukemia, tumor microenvironmentErika Bach, PhDCancer, developmental genetics, metabolism, pharmacology, stem cell biology, JAK/STAT signaling, stem cell self renewal, developmentDafna Bar-Sagi, PhDOncogene function in pancreatic cancer, signal transduction, ras function, inammation, ras signalingTimothy J. Cardozo, MD, PhDBiophysics, cancer, computational biology, pharmacology, systems biology, protein engineering, cheminformatics, rational drug designWilliam L. Carroll, MDCancer, pharmacology, childhood cancers, acute leukemia, apoptotic pathways in cancer cells, genomic and epigenomic analysis of childhood cancer, relapsed/resistant leukemiaPamela Cowin, PhDStem Cell Biology, Mammary Development, Breast Cancer, Cell Adhesion, Wnt and Hedgehog SignalingGregory David, PhDChromatin modications in development and oncogenesis, cancer, genome integrity, pharmacology, stem cell biologyTeresa Davoli, PhDBrian D. Dynlacht, PhDCancer, genome integrity, genomics, stem cell biology, systems biologyDavid Fenyo, PhDBiostatistics, cancer, computational biol-ogy, genomics, imaging, pharmacology, proteomics, systems biologyStefan Feske, MDImmunology, Immunity to infection, Autoimmunity, Primary Immundeciency, Ion channels and transporters, Calcium channels, Cell PhysiologyAlan B. Frey, PhDCancer, immunology, CD8+ T Cell immune response in cancerMichael J. Garabedian, PhDSignal transduction and transcriptional regulation by nuclear receptors, molecular, cellular, & translational neuroscience, regulation of atherosclerosis by LXR, targeting therapy resistant prostate cancerEva M. Hernando-Monge, PhDCancer, genomics, stem cell biologyTony T. Huang, PhDRegulation of ubiquitination and deubiquitination in DNA repair and cancer susceptibility pathways, genome integrity, pharmacologyStevan R. Hubbard, PhDProtein tyrosine kinases, Insulin receptor, Janus kinases, Tyrosine phosphorylation, Histidine phosphorylation, X-ray crystallography, BiophysicsAlec Kimmelman, MD, PhDRadiation oncology and pancreatic cancer metabolismTomas Kirchho, PhDCancer, computational biology, epidemiology, genomicsHannah L. Klein, PhDPathways of DNA damage avoidance, DNArepair and recombination, genomic insta-bility, DNA damage checkpoints, cancerSergei B. Koralov, PhDCancer, immunology, autoimmunity, inammation, microbiotaMichelle Krogsgaard, PhDT-cell recognition and sensitivity, cancer immunology, autoimmunity, receptor signaling, biophysics, can

cerPeng Lee, MD, PhDCancer, Androgen r
cerPeng Lee, MD, PhDCancer, Androgen receptor and its cofactors and target genes in prostate and breast cancerDavid E. Levy, PhDCytokine signaling signal transduction and gene expression, cancer, genomics, immunology, metabolism, pharmacology, stem cell biologyDan R. Littman, MD, PhDT-lymphocyte development and retroviral pathogenesis, cancer, immunology, metabolism, microbiology, microbiome, RNA biology, stem cell biologySusan K. Logan, PhDCellular growth gontrol and androgen receptor, cancer, pharmacology, stem cell biologyGeorge Miller, MDTumor immunology in cancers of the liver and pancreasDaniel Meruelo, PhDCancer, molecular, cellular, & translational neuroscience, gene therapy, Alzheimer’s researchMoosa Mohammadi, PhDBiophysics, pharmacologyBenjamin Neel, MD, PhDSignal transduction pathways regulating normal and malignant cell proliferation, dierentiation, and survivalIman Osman, MB, BCh, MDGenetic and genomic analysis of melanoma initiation, progression, and treatmentMichael Pacold, MD, PhDTumor cell metabolomics and drug discoveryMichele Pagano, MDCell cycle control and ubiquitin-mediated degradation, cancer, genome integrityThales Y. Papagiannakopoulos, PhDElucidating the mechanisms of cancer initiation and progression using genetically engineered mouse models, CRISPR, Cas9, lung, mouse models, cancer, oxidative stress, metabolism, circadian rhythms, cancer, genomicsChristopher Y. Park, MD, PhDHematopathology & Leukemia/Lymphoma BiologyMark R. Philips, MDProcessing and membrane targeting of GTPases, cancer, immunology, pharmacologyDimitris G. Placantonakis, MD, PhDGlioblastoma stem cells, human embryonic stem cells, glioma biology, gliomagenesis, glioma therapeutics, cancer, imaging, molecular, cellular, & translational neuroscienceRichard L. Possemato, PhDTumor metabolism, iron-sulfur clusters, breast cancer, mitochondrial function, serine biosynthesis, cancer, metabolism, mTORBoris Reizis, PhDImmunology, stem cell biology, autoimmunityHyung Don Ryoo, PhDCancer, developmental genetics, genome integrity, pharmacologyRobert J. Schneider, PhDCancer, developmental genetics, genome integrity, microbiology, pharmacology, RNA biology, stem cell biologyMarkus Schober, PhDCancer, developmental genetics, genome integrity, stem cell biologySusan R. Schwab, PhDImmunology, Inammation, CancerJane Skok, PhDGenome integrity, genomics, immunol-ogy, stem cell biology, systems biologyEdward Y. Skolnik, MDCancer, channels and transporters, metabolism, pharmacology, signal transduction mechanismsSusan L. Smith, PhDGenome integrity, cancer, aging, telomeres, sister chromatid cohesion, Poly(ADP-ribosyl)ationItai Yanai, PhDCancer, computational biology, developmental genetics, genomics, microbiome, systems biology, single-cell transcriptomics, gene expression atlas construction, genome evolutionDavid Zagzag, MD, PhDMechanisms of cerebral vasculogenesis and angiogene