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Course Curriculum Syllabus

2017-2018


  
Term 1
  
  Course: GS-GS-501: Organization of the Cell
Course Director(s): Bissig, Karl-Dimiter \ Sifers, Richard N
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Jul 312:30 PMN315Overview and the Secretory PathwayCourse organization, outline etc. General protein expression and maturation. The secretory pathway and nature of various organelles.Sifers, Richard N
  Wed Aug 022:30 PMN315Nuclear TransportOverall structure of the nucleus and nuclear pore complexes. Transport of proteins and RNAs into and out of the nucleus. Nuclear transport and the control of gene expression.Sifers, Richard N
  Thu Aug 035:15 PMN315OC-TA1Review general cell structures, their function and generation. Concepts of vesicular transport and protein import and export for the organelles
  Fri Aug 042:30 PMN315Mitochondria and PeroxisomesStructure and biogenesis of mitochondria and peroxisomes. Protein import into these organelles.Sifers, Richard N
  Mon Aug 072:30 PMN315The Endoplasmic ReticulumQuality control checkpoint and mother of the endomembrane system.Sifers, Richard N
  Wed Aug 092:30 PMN315The Golgi ComplexRegulated vesicular trafficking in the endomembrane system.Sifers, Richard N
  Thu Aug 105:15 PMN315TA #1Review of general cell structures, their function and generation. Concepts of vesicular transport and protein import and export for the organelles.
  Fri Aug 112:30 PMN315Vesicular Transport in ReverseThe plasma membrane-endosome-lysosome connection.Sifers, Richard N
  Mon Aug 142:30 PMN315Apoptosis - Programmed Cell DeathApoptosis versus necrosis, mechanisms of programmed cell death, regulators of apoptosis.Sifers, Richard N
  Wed Aug 162:30 PMN315Midterm Review
  Thu Aug 175:15 PMN315TA #2Review of additional protein trafficking schemes.
  Fri Aug 181:15 PMN315Midterm Exam
  Mon Aug 212:30 PMN315Diseases of Altered Proteostasis IGeneral aspects of proteostasis, diseases of proteostasis Bissig, Karl-Dimiter
  Wed Aug 232:30 PMN315Alterations of Proteostasis IIGenome engineering and macromolecular therapies for altering proteostasis Bissig, Karl-Dimiter
  Thu Aug 245:15 PMN315OC-TA2Review of additional protein trafficking schemes
  Fri Aug 252:30 PMN315Cytoskeleton IActin, microtubules, intermediate filaments, junctional complexes and cellular architecture, cell motility.Sokac, Anna Marie
  Tue Aug 292:30 PMN315Cytoskeleton IIActin, microtubules, intermediate filaments, junctional complexes and cellular architecture, cell motility.Sokac, Anna Marie
  Thu Aug 315:15 PMN315OC-TA3Review of cytoskeleton
  Fri Sep 012:30 PMN315G ProteinsSignaling mechanisms, ligand recognition and conformation changes by receptors, GDP release kinetics, G protein structure and function, effectors, signal processing, inactivation and desensitization, receptor kinases and arrestins, putative roles for PKC.Wensel, Theodore G
  Wed Sep 062:30 PMN315Growth Factors/Tyrosine Kinase SignalingLigands and signals, structure of families of membrane receptors with intrinsic tyrosine kinase activity and introduction to cascades activated by binding to phosphotyrosines, SH2 and SH3 domains, tyrosine kinases associated with membrane bound receptors.Wensel, Theodore G
  Thu Sep 075:15 PMN315TA #3Review of cytoskeleton.
  Fri Sep 082:30 PMN315Calcium and Phospholipase SignalingCalcium and its protein complexes. Phosphoinositides, phospholipase C, protein kinase C, IP3 receptors, proteins regulated by Ca, calmodulin, Ca-regulated channels, annexins, overview of methods for monitoring intracellular Ca and phosphoplipase activity.Wensel, Theodore G
  Mon Sep 112:30 PMN315Current Topic(s) of InterestSifers, Richard N
  Wed Sep 132:30 PMN315Faculty Review
  Thu Sep 145:15 PMN315TA #4Review of endocytosis, lysosomes, and apoptosis.
  Fri Sep 151:15 PMN315Final Exam1:00 PM - 4:00 PM
  
  Course: GS-GS-502: Molecular Methods
Course Director(s): Weigel, Nancy L
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Jul 311:15 PMN315DNA Manipulation, Amplification and DetectionEnzymes to modify, label amplify or quantify nucleic acids; Polymerase chain reaction (PCR) and derivatives such as hybrid PCR, quantitative PCR, real time PCR, droplet PCR.Venken, Koen J. T.
  Wed Aug 021:15 PMN315DNA Cloning IApplications of cloning, vectors, transformation methods, plasmid purification systems, traditional cloning methods, cloning diagnosis.Venken, Koen J. T.
  Fri Aug 041:15 PMN315DNA Cloning IIApplications of advanced cloning and mutagenesis; Gateway, sequence and ligation independent cloning, Gibson cloning, Type II's cloning; mutagenesis.Venken, Koen J. T.
  Mon Aug 071:15 PMN315Flow CytometryIntroduction to the technique of flow cytometry and cell sorting, detecting fluorescent cells through expressed antigens and endogenous fluorescent molecules.Sederstrom, Joel
  Tue Aug 085:15 PMN315TA #1Lectures 1-3.
  Wed Aug 091:15 PMN315Antibody Production, Characterization and Research ApplicationsMonoclonal antibodies(mAbs) - mouse and rabbit hybridomas, B cell IgG cloning and recombinant single domain mAbs; polyclonal antibodies; antibodies to protein post-translational modifications and peptides, characterization and validation of antibodies.Edwards, Dean
  Fri Aug 111:15 PMN315cDNA and Genomic LibrariesConstruction and handling of cDNA libraries; whole genome libraries, targeted strategies such as exome and regional capture, circulating cell-free genomic libraries.Metzker, Michael Lee
  Mon Aug 141:15 PMN315First-Generation Sequencing and GenotypingIntroduction to Maxam-Gilbert, Sanger and automated Sanger sequencing; microarrays, high-throughput genotyping assays.Metzker, Michael Lee
  Wed Aug 161:15 PMN315Next Generation SequencingTechnology approaches and advances of current NGS platforms focusing on both clonally-amplified and single molecule strategies, alignment for variant detection; haplotype phasing and structural variant detectionMetzker, Michael Lee
  Wed Aug 165:15 PMN315TA #2Lectures 6-8.
  Mon Aug 211:15 PMN315CRISPR/Cas9Guide selection;Cas9 nickase; reagent production for in vitro and in vivo applications; nonhomologous end joining, homology directed repair, and homologous recombination; on target and off target screening; emerging applications.Heaney, Jason D
  Wed Aug 231:15 PMN315Single cell genomics: method and applicationsSingle cell DNA and RNA-Seq: platforms and applicationsChen, Rui
  Wed Aug 235:15 PMN315TA #3Lectures 4, 5, 9.
  Fri Aug 251:15 PMN315Midterm Review
  Wed Aug 301:15 PMN315Midterm Exam
  Fri Sep 011:15 PMN315Detection of Protein-Protein InteractionsPrinciples of: western immunoblotting, westerns coupled to co-immunoprecipitation; in vitro (GST) pull-down assays; yeast two-hybrid system; bimolecular fluorescence complementation(BiFC) and phage display.Lydon, John P
  Tue Sep 052:30 PMN315Visualizing ProteinsImmunohistochemical detection methods; lacZ reporters; green fluorescence protein (GFP) reporters; luciferase reporters; fluorescence resonance energy transfer (FRET); bimolecular fluorescence complementation (BiFC); fluorescence recovery after photobleaching.Lydon, John P
  Wed Sep 061:15 PMN315High Throughput MethodsChromatin immunoprecipitation (ChIP) on ChIP (ChIP-Chip); ChIP and high throughput DNA sequencing (ChIP-Seq); protein microarrays (i.e. reverse and forward phase protein microarrays); tissue microarrays.Lydon, John P
  Wed Sep 065:15 PMN315TA #4Lectures 10-13.
  Fri Sep 081:15 PMN315Protein ExpressionExpression systems (E. coli, yeast, insect and mammalian cells), fusion tags (6x His, GST, MBP, intein); co-expression for protein complexes and in vitro translation.York, Robert Brian
  Mon Sep 111:15 PMN315Protein PurificationCell disruption methods; centrifugation, ammonium sulfate precipitation, liquid chromatography (affinity, ion exchange, hydrophobic, size exclusion); SDS-PAGE; evaluating protein concentration (Bradford and extinction coefficients) and biological assays.York, Robert Brian
  Wed Sep 131:15 PMN315RNA Interference and Genetic screensRNA interference (RNAi) mechanisms, RNAi tools, genetic screening methods, technical considerations in using RNAi.Westbrook, Thomas
  Mon Sep 181:15 PMN315Proteomics Mass Spectrometry - Basic PrinciplesMass spectrometer instruments and analytical methods; principles of identification for peptides and post-translational modifications (PTMs); data processing.Malovannaya, Anna
  Tue Sep 195:15 PMN315TA #5Lectures 14-15.
  Wed Sep 201:15 PMN315Proteomics Mass Spectrometry - Applications in BiologyMS-based quantification, global proteome profiling, PTM profiling, protein-protein interaction networks from IP/MS.Malovannaya, Anna
  Fri Sep 221:15 PMN315Summary and integration of lecturesSummary and discussion of examples of integrated research problems.Weigel, Nancy L
  Fri Sep 225:15 PMN315TA #6Lectures 16-18.
  Wed Sep 271:15 PMN315Faculty Review
  Fri Sep 291:15 PMN315Final Exam1:00 PM - 4:00 PM
  
  Course: GS-GS-528: Responsible Conduct of Research - Year 1
Course Director(s): Bertuch, Alison Ann
  DateStart TimeRoomLectureDescriptionLecturer
  Wed Aug 029:00 AMN315(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.Bertuch, Alison Ann
  Wed Aug 099:00 AMN315(1L8) Setting Goals for Your Scientific Development and Coping with Academic Challenges Career 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.Smith, Carolyn L
  Wed Aug 169:00 AMN315(1L1) Data Acquisition and Record Keeping Responsibilities Responsibilities for record keeping, challenges in keeping accurate and understandable notebooks, ownership of research materials, reagent/data sharing.Nelson, David L
  Wed Aug 239:00 AMN315(1L2) Responsible Authorship and Publication Giving credit when credit is due, when to cite or not, how to use direct quotes, paraphrasing, plagiarism, copyright and copyright permission. Smith, Carolyn L
  Wed Aug 309:00 AMN315(1C) Case Studies Data Management/PlagiarismRecord keeping, ownership of research materials, responsible citation, and plagiarism.
  Wed Sep 069:00 AMN315(1L5) Rigor and Reproducibility The scientific method, blinding and randomization, technical vs. biological replicates, authentication of key biological and/or chemical resources, transparency.Bertuch, Alison Ann
  Wed Sep 139:00 AMN315(1L7) Professionalism in Science Government organizations, private funding sources, applying for fellowships, structure of a grant, grant review system, consequences of fraud in grant applications, science advocacy. Kuspa, Adam
  Wed Sep 209:00 AMN315(1L9) Conflict ResolutionPotential causes of conflict during graduate training, approaches to conflict resolutionHyle, Laurel
  
  Course: GS-GS-503: Genetics A
Course Director(s): Herman, Christophe \ Dierick, Herman A.
  DateStart TimeRoomLectureDescriptionLecturer
  Tue Aug 011:15 PMN315Mendelian GeneticsGene nomenclature: gene/allele/genotype/phenotype. Dominant v. recessive mutations. Mendel's laws. Penetrance v. expressivity.Dierick, Herman A.
  Thu Aug 031:15 PMN315Cellular Mechanisms of Mendelian Genetics and LinkageMeiosis v. mitosis. Linkage. Two-point and three-point mapping. Complementation.Dierick, Herman A.
  Tue Aug 081:15 PMN315Statistical Methods in Genetics.Basics of pedigrees. Binomial statistics: identifying probabilities of alternative choices. Bayesian statistics: altering a priori probability. X square tests: testing data against a model.Dierick, Herman A.
  Thu Aug 101:15 PMN315Population GeneticsMultifactorial traits: continuous, dichotomous and meristic traits. Polygeneticity and heritability. Allele frequencies, genotype frequencies and Hardy Weinberg. Inbreeding and inbreeding coefficients. Selection and balanced polymorphisms.Dierick, Herman A.
  Mon Aug 145:15 PMN315TA #1General Genetic Principles
  Tue Aug 151:15 PMN315Genetic ScreensMutant building: discovering genes involved in a biological process through screens. Mutagens and screen saturation. Yeast genetics and tetrad analysis.Bates, David B.
  Thu Aug 171:15 PMN315Selecting and Identifying MutantsIdentifying mutated genes. Selection and screening strategies, reporter genes and secondary screens.Bates, David B.
  Tue Aug 221:15 PMN315Genetic SuppressionGenetics as a study of how proteins interact, fold and function. Mechanisms of genetic suppression. Genetic enhancement and synthetic lethality.Bates, David B.
  Thu Aug 241:15 PMN315Epistasis and Pathway AnalysisDetermining the order of action of proteins in a pathway by epistasis analysis. Ordering genes in metabolic and regulatory pathways.Bates, David B.
  Thu Aug 242:30 PMN315Midterm Review
  Fri Aug 255:15 PMN315TA #2Phenotype, pathway analysis and genetics screens.
  Mon Aug 281:15 PMN315Midterm Exam1:00 PM - 4:00 PM
  Thu Aug 311:15 PMN315Bacterial Genetics IGenetic transmission: haploid and circular genomes, P1-transduction, F-factors, HFRs, conjugation.Rosenberg, Susan M
  Tue Sep 051:15 PMN315Viral/Phage Genetics.Virus cycle, complementation group.Herman, Christophe
  Thu Sep 071:15 PMN315Bacterial Genetics IIRecombination.Rosenberg, Susan M
  Tue Sep 121:15 PMN315Bacterial Genetics IIISOS response, transpositionRosenberg, Susan M
  Thu Sep 141:15 PMN315Genetic Engineering IArtificial chromosomes, recombineering in bacteria, homing endonucleases (I-SceI), seamless versus remnant engineering.Venken, Koen J. T.
  Mon Sep 185:15 PMN315TA #3Bacterial Genetics.
  Tue Sep 191:15 PMN315Genetic Engineering IIIntegrases, Zn finger technology, TALE technology, Crispr/Cas technology.Venken, Koen J. T.
  Thu Sep 211:15 PMN315Faculty Review
  Thu Sep 215:15 PMN315TA #4Genetic Engineering.
  Mon Sep 251:15 PMN315Final Exam1:00 PM - 4:00 PM
  
  
Term 2
  
  Course: GS-GS-504: Genetics B
Course Director(s): Zhou, Zheng
  DateStart TimeRoomLectureDescriptionLecturer
  Tue Oct 101:15 PMN315IntroductionForward and reverse genetics. Strengths of model systems. Nomenclature. The concept of maternal effect.
  Thu Oct 121:15 PMN315C.elegans IAdvantages and special considerations of hermaphrodite genetics. How to construct strains, strategies of genetic screens, cloning genes, balancers.
  Tue Oct 171:15 PMN315C.elegans IIC.elegans transformation. Impact of the C.elegans genome project. Reverse genetics using RNA interference and gene deletions. Studies of gene interaction.
  Wed Oct 185:15 PMN315TA #1
  Thu Oct 191:15 PMN315Yeast IBasic molecular manipulations in reverse genetics: cloning by complementation, plasmid gap repair, gene disruption/replacement, plasmid shuffle.
  Tue Oct 241:15 PMN315Yeast IIGenome analysis and functional genomics. The impact of the yeast genome project. Systematic manipulation of entire gene sets to monitor mRNA expression and protein localization in vivo.
  Mon Oct 305:15 PMN315GB-TA1Held in N315
  Tue Oct 311:15 PMN315IntroductionForward and reverse genetics.Strengths of model systems.Nomenclature.The concept of maternal effect.
  Thu Nov 021:15 PMN315Yeast IBasic molecular manipulations in reverse genetics: cloning by complementation, plasmid gap repair, gene disruption/replacement, plasmid shuffle
  Fri Nov 035:15 PMN315TA #2
  Tue Nov 071:15 PMN315Mouse Genetics IInbred mice. Microsatellite markers. Mapping genes in mice using crosses.
  Tue Nov 072:30 PMN315Faculty Review
  Thu Nov 091:15 PMN315GB Midterm Exam1:00-4:00
  Tue Nov 141:15 PMN315Mouse Genetics IIInsertion of DNA and retrotransposons. Knock-outs and ins. Conditional knock-outs.
  Thu Nov 161:15 PMN315Yeast IIGenome analysis and functional genomics.The impact of the yeast genome project.Systematic manipulation of entire gene sets to monitor mRNA expression and protein localization in vivo.
  Fri Nov 175:15 PMN315GB-TA2Held in N315
  Mon Nov 201:15 PMN315Drosophila IIntroduction. Nomenclature and markers; chromosome cytology (polytene chromosomes) and chromosome rearrangements; using balancer chromosomes to follow segregation and to isolate mutations; P-elements and transformation; site-specific integration using the PhiC31 system.
  Tue Nov 281:15 PMN315C.elegans IAdvantages and special considerations of hermaphrodite genetics.How to construct strains, strategies of genetic screens, cloning genes, balancers.
  Thu Nov 301:15 PMN315C.elegans IIC.elegans transformation.Impact of the C.elegans genome project.Reverse genetics using RNA interference and gene deletions.Studies of gene interaction.
  Fri Dec 015:15 PMN315GB-TA3Held in 201A
  Wed Dec 061:15 PMN315Faculty Review
  Fri Dec 081:15 PMN315GB Final Exam1:00-4:00
  
  Course: GS-GS-505: Cell Division
Course Director(s): Ira, Grzegorz \ Chang, Eric C
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Oct 091:15 PMN315Course Introduction/Cell Cycle OverviewDiscovery of cell cycle regulation--Cell cycle stages, mitosis and meiosis, discovery of CDK/cyclin/MPF.
  Wed Oct 111:15 PMN315Principles of cell cycle regulation ICDKs, cyclins, CKIs, and proteolysis.
  Fri Oct 131:15 PMN315Principles of cell cycle regulation IICell cycle transitions, G1/S and G2M.
  Mon Oct 161:15 PMN315S phaseInitiation and control of DNA replication at origins of replications.
  Tue Oct 175:15 PMN315TA #1Review of cell cycle basics, S phase.
  Wed Oct 181:15 PMN315Course Introduction/Cell Cycle OverviewDiscovery of cell cycle regulation--Cell cycle stages, mitosis and meiosis, discovery of CDK/cyclin/MPF
  Fri Oct 201:15 PMN315S phaseInitiation and control of DNA replication at origins of replications
  Mon Oct 231:15 PMN315DNA DamageDNA damage and repair.
  Mon Oct 235:15 PMN315CD-TA1Review of cell cycle basics, S phase
  Tue Oct 242:30 PMN315Midterm ReviewLectures 1-7.
  Wed Oct 251:15 PMN315CD Midterm ExamLectures 1-7
  Fri Oct 271:15 PMN315DNA RepairRepair of double strand breaks by homologous and non-homologous recombination.
  Mon Oct 301:15 PMN315Principles of cell cycle regulation ICDKs, cyclins, CKIs, and proteolysis
  Fri Nov 031:15 PMN315Cell Cycle CheckpointsIntroduction to cell cycle checkpoints, the DNA damage checkpoint.
  Mon Nov 061:15 PMN315Principles of cell cycle regulation IICell cycle transitions, G1/S and G2M
  Wed Nov 081:15 PMN315Chromosome nuclear organization3D chromosome organization and folding.
  Fri Nov 101:15 PMN315Cell Cycle CheckpointsIntroduction to cell cycle checkpoints, the DNA damage checkpoint
  Tue Nov 142:30 PMN315Faculty ReviewLecture 8-12
  Wed Nov 151:15 PMN315CD Final ExamLectures 8-12. (1:00-4:00 PM)
  
  Course: GS-GS-508: Cancer
Course Director(s): Pangas, Stephanie A
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Nov 131:15 PMN315Introduction to Cancer CourseMouse models of cancer using lung cancer as an example
  Fri Nov 171:15 PMN315Introduction, OncogenesCourse introduction; Basic concepts I: Oncogenes.
  Mon Nov 202:30 PMN315Mouse modelsMouse models to study cancer.
  Mon Nov 271:15 PMN315Oncogenes
  Wed Nov 291:15 PMN315Cancer as a Multi-Step Process
  Fri Dec 011:15 PMN315Tumor suppressor genesBasic concepts II: Tumor suppressors.
  Mon Dec 041:15 PMN315Faculty Review
  Tue Dec 051:15 PMN315Final Exam1:00 PM - 4:00 PM
  
  Course: GS-GS-523: Method and Logic in Molecular Biology
Course Director(s): Mardon, Graeme \ Suter, Melissa Anne
  DateStart TimeRoomLectureDescriptionLecturer
  Tue Oct 1010:00 AMN315Method and Logic MeetingAttendance at this class (to be held in N315) is mandatory for all students who intend to take this course.This organizational meeting begins at 10:15 and runs until 11:45 AM.
  Thu Oct 1210:00 AMN315Method and Logic MeetingAttendance at this class (to be held in N315) is mandatory for all students who intend to take this course. This organizational meeting begins at 10:15 and runs until 11:45 AM.
  Tue Oct 1710:00 AMN315Method and Logic MeetingClasses will be held in N302, N304, N310, N317 and M303 from this class onwards. Classes begin at 10 AM and end at noon.
  Thu Oct 1910:00 AMN315Method and Logic MeetingClasses will be held in N302, N304, N310, N317 and M303 from this class onwards. Classes begin at 10 AM and end at noon.
  Tue Oct 2410:00 AMN315Method and Logic Meeting
  Tue Oct 3110:00 AMN315Method and Logic Meeting
  Thu Nov 0210:00 AMN315Method and Logic Meeting
  Tue Nov 0710:00 AMN315Method and Logic Meeting
  Thu Nov 0910:00 AMN315Method and Logic Meeting
  Tue Nov 1410:00 AMN315Method and Logic Meeting
  Thu Nov 1610:00 AMN315Method and Logic Meeting
  Tue Nov 2810:00 AMN315Method and Logic Meeting
  Thu Nov 3010:00 AMN315Method and Logic Meeting
  
  Course: GS-GS-506: Development
Course Director(s): Groves, Andrew Kelton
  DateStart TimeRoomLectureDescriptionLecturer
  Mon Oct 092:30 PMN315DE Seminar
  Wed Oct 112:30 PMN315Core Concepts in Developmental BiologyIntroduction to class.
  Fri Oct 132:30 PMN315Setting up the vertebrate body plan IAxis determination and gastrulation.
  Mon Oct 162:30 PMN315Setting up the vertebrate body plan IIMammalian development and embryonic stem cells.
  Wed Oct 182:30 PMN315Setting up the vertebrate body plan IIIPatterning the embryo from head to tail.
  Fri Oct 202:30 PMN315Core Concepts in Developmental Biology
  Fri Oct 205:15 PMN315TA-DE1
  Mon Oct 232:30 PMN315ES cells, pluripotency and reprogramming / iPS
  Fri Oct 272:30 PMN315Stem cells in the adult
  Fri Oct 275:15 PMN315TA #1Review of Lectures 1-4.
  Mon Oct 302:30 PMN315Mid-Term Faculty Review
  Wed Nov 011:15 PMN315Midterm Exam1:00 PM - 4:00 PM
  Fri Nov 032:30 PMN315Introduction to Drosophila embryogenesisOverview of Drosophila oogenesis and embryogenesis.
  Mon Nov 062:30 PMN315Setting up the vertebrate body plan IAxis determination and gastrulation
  Wed Nov 082:30 PMN315Embryonic patterning in Drosophila - IMaternal-effect genes and the establishment of the anteroposterior axes.
  Fri Nov 102:30 PMN315Setting up the vertebrate body plan IIMammalian development and embryonic stem cells
  Fri Nov 105:15 PMN315TA #2Review of Lectures 5-6.
  Mon Nov 132:30 PMN315Embryonic patterning in Drosophila IIMaternal-effect genes and the establishment of the dorsoventral axes.
  Thu Nov 162:30 PMN315Patterning the embryo from head to tail
  Thu Nov 165:15 PMN315TA-DE2
  Fri Nov 172:30 PMN315Faculty Review
  Tue Nov 211:15 PMN315 Final Exam1:00 PM - 4:00 PM
  
  Course: GS-GS-515: Ethics - Year 2
Course Director(s): Bertuch, Alison Ann
  DateStart TimeRoomLectureDescriptionLecturer
  Wed Oct 119:00 AMN315(2L1) Research misconduct - (NIH b3) Safe Practices in the LaboratoryDefinitions - Falsification, fabrication, plagiarism – whistleblowers, allegations, investigations, penalties. College policy and mechanisms for handling misconduct allegations, federal policies and procedures. (NIH b3) Safe Practices in the Laboratory
  Wed Oct 189:00 AMN315(2L1) Research misconduct - (NIH b3) Safe Practices in the LaboratoryDefinitions - Falsification, fabrication, plagiarism – whistleblowers, allegations, investigations, penalties. College policy and mechanisms for handling misconduct allegations, federal policies and procedures. (NIH b3) Safe Practices in the Laboratory.
  Wed Oct 259:00 AMN315(2M) MentorshipMeeting with 2nd year students and their mentors, matching expectations between mentor student, developing communication channels, picking an appropriate thesis topic, the thesis committee as a resource
  Wed Nov 019:00 AMN315(2M) MentorshipMeeting with 2nd year students and their mentors, matching expectations between mentor student, developing communication channels, picking an appropriate thesis topic, the thesis committee as a resource.
  Wed Nov 089:00 AMN315(2L2) Ethics of Biomedical Studies with AnimalsWhen can animals be used ethically in research, avoiding unnecessary pain/suffering and euthanasia, appropriate selection of numbers/types of animals in research, animal use approval.
  
  Course: GS-GS-527: ABC-Applications to Biology of Computation
Course Director(s): Lichtarge, Olivier \ Wilkins, Angela Dawn
  DateStart TimeRoomLectureDescriptionLecturer
  Tue Oct 109:00 AMN315Big Data GeneticsThis lecture will introduce genome interpretation and will cover(1) opportunities for genetics-driven biology that will be opened by the sequencing of millions of genomes during this decade; (2) efforts by the Clinical Genome Resource project to develop
  Wed Oct 115:15 PMN315TA #1Hardware and Contemporary Computing Infrastructure.
  Thu Oct 129:00 AMN315Big Data GeneticsIntroduction to the ABC course and “Omic” biology - Epigenomics and genome biology.
  Fri Oct 135:15 PMN315TA Session 1Hardware and Contemporary Computing Infrastructure.This TA session will be held in 301A.
  Tue Oct 179:00 AMN315Network BiologyNetwork Biology - Inference and knowledge representation. This lecture will focus on (1) inference of pathways, networks, and network modules; (2) Interpretation of Big Data experiments using networks, pathways, and modules as background knowledge; (3) Computational representation of network and pathway knowledge.
  Thu Oct 199:00 AMN315Network BiologyInference and knowledge representation.This lecture will focus on (1) inference of pathways, networks, and network modules; (2) Interpretation of Big Data experiments using networks, pathways, and modules as background knowledge; (3) Computational repres
  Tue Oct 249:00 AMN315A Primer in Network Biology IElements in transcription networks, network motif and graph theory.
  Fri Oct 279:00 AMN315Genome StructureVariation, evolution and cancer.
  Tue Oct 319:00 AMN315A Primer in Network Biology IElements in transcription networks, network motif and graph theory.
  Thu Nov 029:00 AMN315A Primer in Network Biology IINetwork inference from genomics data. This class will be held in 201A
  Tue Nov 079:00 AMN315Computational Analysis of Networks and Pathways IIntroduction to computational methods to analyze biological information from networks.
  Thu Nov 099:00 AMN315A Primer in Network Biology IINetwork inference from genomics data.
  Tue Nov 149:00 AMN315Computational Analysis of Networks and Pathways IIntroduction to computational methods to analyze biological information from networks.
  Thu Nov 169:00 AMN315Computational Analysis of Networks and Pathways IIComputational methods to decode and to analyze biological information from networks - advanced topics.
  Mon Nov 209:00 AMN315Big Data GeneticsThis lecture will introduce genome interpretation and will cover(1) opportunities for genetics-driven biology that will be opened by the sequencing of millions of genomes during this decade; (2) efforts by the Clinical Genome Resource project to develop
  Tue Nov 219:00 AMN315Computational Analysis of Networks and Pathways IIComputational methods to decode and to analyze biological information from networks - advanced topics.
  Tue Nov 289:00 AMN315Recent Developments in Gene MappingFocused on gene mapping approach and current approach and challenges in functional annotation, interpretation and prioritization. It will review the basic disease models (common vs rare) and gene mapping frameworks (GWAS, Exome, CVAS vs RVAS). Guiding principles in functional prioritization and challenges going forward.
  Thu Nov 309:00 AMN315Cancer GenomicsApplication of NGS variation analysis onto tumor samples.How do tumor genomes differentiate from normal genomes? What have we learned from large- scale cancer genome sequencing such as TCGA, etc.?
  Thu Dec 079:00 AMN315ABC - Final ExamFinal Exam will be held in N315.
  
  
Term 3
  
  Course: GS-GS-511: Neuroscience
Course Director(s): Ray, Russell Scott
  DateStart TimeRoomLectureDescriptionLecturer
  Tue Jan 022:30 PMN315Cellular and Structural NeuroanatomyMajor subdivisions of the mammalian brain, their general organization and the specialized cells required for function.
  Thu Jan 042:30 PMN315Neuronal BiophysicsStructure and function of the major membrane proteins responsible for establishing ionic gradients in neurons and how they are used to transmit electrical information.
  Tue Jan 092:30 PMN315Cellular and Structural NeuroanatomyMajor subdivions of the mammalian brain, their general organization and the specialized cells required for function.
  Thu Jan 112:30 PMN315Neuronal BiophysicsStructure and function of the major membrane proteins responsible for establishing ionic gradients in neurons and how they are used to transmit electrical information.
  Tue Jan 162:30 PMN315Synaptic PhysiologySpecialized structures and proteins that allow electrical signals to be converted to chemical messengers and then back again to facilitate cell-cell communication
  Thu Jan 182:30 PMN315Learning and MemoryMolecular and cellular requirements for storing new information and recalling it later.
  Tue Jan 231:15 PMN315Final Exam1:00 PM - 4:00 PM

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