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Course Curriculum Syllabus


Term 1
  Course: GS-GS-6600: Foundations A: Molecules to Systems
Course Director(s): Sifers, Richard
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Aug 011:00 PMN315Nucleic AcidsNucleic acid structure, DNA supercoiling, RNA, Aptamers, Nucleic acid-based diseases (chemical biology and drug discovery)Young, Damian
  Wed Aug 031:00 PMN315Carbohydrates and LipidsMonosaccharides, Polysaccharides, Glycoproteins, Carbohydrate-based diseases, (chemical biology and drug discovery), Lipid classification, Properties of lipids and aggregates, Lipid-based diseases (chemical biology)Young, Damian
  Fri Aug 051:00 PMN315Proteins 1The Amino acids, protein structure (primary, secondary, etc.), Thermodynamics of protein folding, Protein classification into familiesWang, Jin
  Fri Aug 052:30 PMN315Discussion Groups - 1
  Mon Aug 081:00 PMN315Proteins 2Enzymology (kinetics), Inhibitors (competitive, etc.), Protein-based diseases (chemical biology and drug discovery)Wang, Jin
  Mon Aug 085:15 PMN315Module 1
  Wed Aug 101:00 PMN315Organelle BiogenesisProtein trafficking principles, Protein trafficking schemes, Signaling motifs and cognate receptors.Sifers, Richard
  Fri Aug 121:00 PMN315Protein topologySequence-directed protein topology in cell membranesSifers, Richard
  Mon Aug 151:00 PMN315Vesicular transport of proteinsSecretory pathway and vesicular transport, Vesicle coat proteins, directional protein transport (budding, fusion, lipid recycling), Microtubules and motor proteinsSifers, Richard
  Wed Aug 171:00 PMN315ExocytosisProtein delivery to lysosomesSifers, Richard
  Fri Aug 191:00 PMN315Intracellular protein phase separagionCell organelle evolution and roles, Lipid compositions and exchange among intracellular membranes.Lee, Jason
  Fri Aug 192:30 PMN315Discussion Groups - 2
  Fri Aug 195:15 PMN315Module 2
  Mon Aug 221:00 PMN315Signal transduction and ion transport overviewLevels and mechanisms, General properties of membrane and nuclear receptors, Mechanisms to transmit signals throughout cells, Crosstalk, ExosomesGarcia, Thomas
  Wed Aug 241:00 PMN315Relevant PTMs in Signal TransductionPhosphorylation, Acetylation, Methylation, Ubiquitination, Lipid additionsGarcia, Thomas
  Fri Aug 261:00 PMN315Calcium and Phospholipase signlaingCalcium and its protein complexes, Phosphoinositides, Phospholipase D, Protein kinase C, IP3 receptors, Ca2+-regulated channels, AnnexinsGarcia, Thomas
  Fri Aug 262:30 PMN315Discussion Groups - 3
  Mon Aug 291:00 PMN315Membrane-bound receptorsTopics to be covered: Tyrosine kinases and downstream signaling, Serine kinases (i.e., TGF beta) and downstream signalingGarcia, Thomas
  Wed Aug 311:00 PMN315GPCRsG proteins and downstream signalsGarcia, Thomas
  Wed Aug 315:15 PMN315Module 3
  Fri Sep 021:00 PMN315
  Wed Sep 071:00 PMN315DNA replicationDNA replication and its control in cell cycleIra, Grzegorz
  Fri Sep 091:00 PMN315DNA damage and repairDNA damage and basic DNA repair pathways (NER,BER, NHEJ, & HR)Ira, Grzegorz
  Fri Sep 092:30 PMN315Discussion Groups - 4
  Mon Sep 121:00 PMN315Cell division and cell cyclePhases of cell cycle, cyclins and CDKsDang, Weiwei
  Wed Sep 141:00 PMN315Regulation of cell cycle and checkpointsFactors regulating cell cycle from yeast to mammals, checkpoint regulatorsDang, Weiwei
  Wed Sep 145:15 PMN315Module 4
  Fri Sep 161:00 PMN315Mendelian GeneticsBasics of Mendel, Punnett Square, tree diagram, altered ratios and epistasisDierick, Herman
  Mon Sep 191:00 PMN315Mutations and mutantsRecessive and dominant mutants, types of dominance, penetrance and expressivityDierick, Herman
  Wed Sep 211:00 PMN315Meiosis, linkage & mappingMeiosis as the underlying mechanism of Mendelian inheritance, linkage and mapping (2-point, 3-point/deletion mapping)Dierick, Herman
  Fri Sep 231:00 PMN315Human Pedigree analysis & genomicsDierick, Herman
  Mon Sep 261:00 PMN315Genetic screenDisrupting genes, screening for mutant phenotypes, and identifying genes by complementation analysisBates, David
  Wed Sep 281:00 PMN315Gene interactionsGenetic suppression and synthetic enhancement, using one gene to find relaBates, David
  Fri Sep 301:00 PMN315Epistatis analysisDetermining the order of function of genes in regulatory and metabolic pathwaysBates, David
  Fri Sep 302:30 PMN315Discussion Groups - 5
  Fri Sep 305:15 PMN315Module 5
  Course: GS-GS-5113: Effective Project Design and Management
Course Director(s): Samuel, Buck
  DateStart TimeRoomLectureDescriptionLecturer
  Thu Sep 011:00 PMN315What is a Thesis and How to Get StartedThe concept of a thesis as it relates to project scope and the concept of hypothesis and non-hypothesis driven projects. Samuel, Buck
  Thu Sep 081:00 PMN315How to Generate Ideas and Turn Them into ProjectsThe advantages of being able to develop your own ideas and how mentors can point out the path and you can pave it.Samuel, Buck
  Thu Sep 151:00 PMN315Identifying Publishable Units and Scientific StorytellingSmall group practice sessions focusing on how to identify publishable units, ‘flipping the story’ and moving beyond a timeline of experiments to tell the story that you want.Samuel, Buck
  Thu Sep 221:00 PMN315Project ManagementStoryboarding outcomes and participate in small group discussions to provide feedback on what worked wellSamuel, Buck
  Thu Sep 291:00 PMN315Case StudiesSamuel, Buck
  Course: GS-GS-5101: Responsible Conduct of Research - Year 1
Course Director(s): Swindell, Eric
  DateStart TimeRoomLectureDescriptionLecturer
  Wed Aug 032:30 PMN315(1L2) Responsible Authorship and PublicationsGiving credit when credit is due, when to cite or not, how to use direct quotes, paraphrasing, plagiarism, copyright and copyright permission. Swindell, Eric
  Wed Aug 102:30 PMN315(1M) The Mentor/Mentee RelationshipSelecting a lab and developing a group of mentors, what to look for in the mentor/mentee relationship, keeping on track toward your degree.Smith, Carolyn
  Wed Aug 172:30 PMN315(1L3) Resilience Coping with academic challenges Yang, Peggy
  Wed Aug 242:30 PMN315(1L7) The Impact of Diversity & Representation in ScienceInteractive discussions based on reviews of historical data and cases related to the impact of diversity and representation in science.Monsivais, Diana
  Wed Aug 312:30 PMN315(1L1) Data Acquisition & Record-Keeping ResponsiblitiesResponsibilities for record keeping, challenges in keeping accurate and understandable notebooks, ownership of research materials, reagent/data sharing.Nelson, David
  Wed Sep 072:30 PMN315(1C) Case StudiesSmall Group discussions with a faculty discussion leader
  Wed Sep 142:30 PMN315(1L6) Setting Goals for Your Scientific Development & Success in Graduate SchoolCareer paths for the professional scientist, career decisions (how and when to make them), what to do in your first year to ensure your success, developing curiosity, coursework (what to expect in grad school), lifelong learning, where to get help and information, thinking now about the next step.Swindell, Eric
  Wed Sep 212:30 PMN315(1L5) Rigor & ReproducibilityReproducibility, transparency, authentication of key biological and chemical resources, types of replication, blinding and randomizationPautler, Robia
  Course: GS-GS-5111: Strategies for Success in Graduate School
Course Director(s): Samuel, Melanie \ Arey, Rachel
  DateStart TimeRoomLectureDescriptionLecturer
  Thu Aug 189:00 AMM112How to Choose a MentorThe characteristics of good mentors and how to choose and evaluate a lab. Arey, Rachel
  Tue Aug 231:00 PMN315How to Be an Effective MenteeSuccess in navigating and fostering your relationship with your mentor and understanding your role in a lab. Taking ownership over your graduate career and how to have difficult conversations with your PISamuel, Melanie
  Tue Aug 301:00 PMN315A Sense of Belonging in Science - Part 1Inclusivity in science and the remaining challenges we have as a community to make science and STEM an environment where everyone can succeedArey, Rachel
  Tue Sep 061:00 PMN315Evidence-Based Decision Making During Challenging MomentsBrainstorm and discuss potential solutions for improving inclusivity in science and leveling the playing field. Yang, Peggy
  Tue Sep 201:00 PMN315Networking and Planning your Graduate CareerPrinciples of inside out versus outside in motivation, the choices and day to day realities of different career paths, resources for career planning, and what goes in the Individual Development Plan (IDP). Samuel, Melanie
  Course: GS-GS-6400: Foundations B: Biostatistics
Course Director(s): Hilsenbeck, Susan \ Minard, Charles
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Aug 012:30 PMN315Introduction and overviewHilsenbeck, Susan
  Thu Aug 042:30 PMN315Labs: Install and introduce R, data management
  Mon Aug 082:30 PMN315Summarizing numerical dataWang, Tao
  Thu Aug 112:30 PMN315Labs: Summarize data, statistics and graphs
  Mon Aug 152:30 PMN315Differences between groupsHilsenbeck, Susan
  Thu Aug 182:30 PMN315Differences between two groupsMinard, Charles
  Mon Aug 222:30 PMN315Multiple ComparisonsHilsenbeck, Susan
  Thu Aug 252:30 PMN315Labs: ANOVA, t-test, multiple comparisons
  Mon Aug 292:30 PMN315Rates and ProportionsMinard, Charles
  Thu Sep 012:30 PMN315Labs: Rates and Proportions
  Thu Sep 082:30 PMN315Power and sample sizeWang, Tao
  Mon Sep 122:30 PMN315Confidence intervalsMinard, Charles
  Thu Sep 152:30 PMN315Labs: Power and sample size, confidence intervals
  Mon Sep 192:30 PMN315Linear RegressionWang, Tao
  Thu Sep 222:30 PMN315Regression, CorrelationWang, Tao
  Mon Sep 262:30 PMN315
  Thu Sep 292:30 PMN315Labs: Linear Regression, Correlations

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