Ph.D. student Course Molecular Neurobiology

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1 1 Ph.D. student Course Molecular Neurobiology 19 June 27 June 2013 Organizers: Joost Verhaagen Netherlands Institute for Neurosciences Meibergdreef BA Amsterdam telephone : (020) fax : (020) Guus Smit Dept. of Molecular and Cellular Neurobiology VU University Faculty of Earth and Life Sciences De Boelelaan HV Amsterdam telephone : (020) fax : (020) Graduate School Neurosciences Amsterdam Rotterdam

2 2 List of speakers Netherlands Institute for Neurosciences Koen Bossers Meibergdreef 47 Joost Verhaagen BA Amsterdam Christian Lohmann Joanna Korecka Marie Orre Arthur Bergen Callan Attwell Nitish Fagoe VU University, Dept. of Neurosciences Ronald van Kesteren Faculty of Earth and Life Sciences Marjo van der Knaap De Boelelaan 1087 Guus Smit HV Amsterdam Ka Wan Li Sabine Spijker Pim van Nierop Matthijs Verhage Sander Groffen Ruud Toonen Danielle Posthuma Francesca Mela Vivi Heine Huib Mansvelder VU medical Center Annemieke Rozemuller Van der Boechorstraat BT Amsterdam University of Amsterdam, UVA Marten Smidt Postbus GE Amsterdam Rudolf Magnus Institute for Neurosciences Vamshi Vangoor P.O. Box TA Utrecht Center for Society and Genetics Martina Cornel Faculty of Earth and Life Sciences De Boelelaan HV Amsterdam Netherlands Cancer Institute Titia Sixma Plesmanlaan CX Amsterdam Leiden University Medical Center Japrien Noordermeer Postbus 9600 Eleonora de Klerk 2300 RC Leiden Ingrid Verhaart International Guest Speaker: Swammerdam Lecture Andrea Luthi

3 3 Locations: Lectures at the VU University (19, 20, 24 June): buildings and rooms are indicated in the program. Explanation locations: HG = hoofdgebouw VU = main building VU, De Boelelaan 1105, Amsterdam (e.g. 02A02 = 2nd floor, wing A, room 02.) WN = Wis- en Natuurkunde = science building VUA, De Boelelaan 1085, Amsterdam MF = Medische Faculty = building medical faculty, Van der Boechorststraat 7, Amsterdam (BK = in the basement of the building) For route description, please see: All lectures in the Netherlands Institute for Neuroscience ( June) are in the Colloquium Room at the third floor of the Institute at Meibergdreef 47, Amsterdam-Zuidoost. For route description, please see:

4 4 Program Ph.D. course molecular neurobiology Wednesday 19 June 2013 (VU) *WN = Science Building VU De Boelelaan Welcome and introductory remarks on Guus Smit *WN M607 the aim of the program Basics of molecular neuroscience: the gene and gene regulation Overview of molecular neuroscience Guus Smit *WN M607 Fundamental aspects concerning the structure of DNA and RNA, the basic organization of a gene, the process of transcription & translation Coffee Sequence analysis Practical: Introduction to electronic gene databases: Pim van Nierop *WN S201 what is in it and how to use them? Lunch Basics of molecular neuroscience: the genome, what did we learn during the last 10 years? The structure and evolution of the genome: SNPs and CNVs Sander Groffen * WN M Tea mirnas: versatile regulators of gene expression Vamshi Vangoor * WN M607

5 5 Thursday 20 June 2013 (VU) *WN = Science buildingvu De Boelelaan 1085 Analysis of DNA and protein protein interactions Sequence analysis Protein crystallography: application in neurobiology Titia Sixma *WN M Protein interactions: the yeast-two-hybrid system Pim van Nierop *WN M607 Basic Molecular Biology techniques Manipulation of genes/dna: vectors and their applications Pim van Nierop *WN M607 DNA is hosted in vectors. Various types of vectors are Available to researchers and their applications will be discussed The polymerase chain reaction and its applications Pim van Nierop *WN M Lunch Proteomics Introduction to proteomics Ka Wan Li *WN M Tea Application: Mouse models of disease; proteomics analysis of the synapse Ka Wan Li *WN M Demonstration: mass spectrometry Ka Wan Li *WN C324

6 6 Friday 21 June 2013 (NIN) High-throughput gene expression analysis Introduction to micro-array technology Koen Bossers Application of microarray technology: global assessment of changes in gene expression following peripheral nerve injury Ronald van Kesteren Coffee LLM3D: Analysis of transcriptional regulation using Ronald van Kesteren computational methods Lunch Bioinformatics analysis of micro-array datasets: application on human brain expression data sets Gene expression profiling using high-throughput sequencing - measuring all there is?! Koen Bossers Eleonora de Klerk Tea Demonstration: microarray analysis Koen Bossers/ Joanna Korecka

7 7 Monday 24 June 2013 (VU) *MF = Building Medical Faculty Van der Boechorstraat 7 High content, medium throughput cellular screening technology High-content cellular screening as a discovery tool in Ronald van Kesteren neuroscience *MF A Application of Cellomics technology: Follow-up screening of neuronal targets in peripheral nerve injury Nitish Fagoe Callan Attwell *MF A Coffee A cell culture and phenotype screening facility Francesca Mela *MF A311 at the VU/VUMC Demonstration of Cellomics KineticScan Reader Ronald van Kesteren/ and cellular phenotype screening facility Francesca Mela *MF A Lunch Live cellular imaging of tagged proteins Live imaging of GFP-tagged proteins in neurons Ruud Toonen *MF A Imaging structural plasticity and synaptic signaling in intact neuronal circuits Christian Lohmann * MF A311

8 8 Tuesday 25 June (NIN) Gene delivery to the nervous system: in-vivo approaches Viral vector-mediated gene transfer: basic science and therapeutic applications Joost Verhaagen Antisense-mediated exon skipping: The example of Ingrid Verhaart Duchenne Muscular Dystrophy Coffee Transgenic mouse technology Sander Groffen Lunch Demonstration: Cold Spring Harbor video of mouse oocyte injections, ES-cell technology, uterus implantation Knock-out technology Sander Groffen Random mutagenesis, forward genetics/high throughput Matthijs Verhage phenotyping in mice

9 9 Wednesday 26 June 2013 (NIN) Application of molecular biology to study basic neurobiological problems Induced pluripotent stem cells Vivi Heine Dopaminergic neurons: transcriptional determinants Marten Smidt Coffee Dissecting neural circuits underlying complex behaviors in Drosophila. Jasprien Noordermeer Lunch Optogenetics Huib Mansvelder Dissecting neuropsychiatric disorders: the molecular approach Sabine Spijker Tea Society and Genomics Martina Cornel

10 10 Thursday 27 June 2013 (NIN) Application of molecular biology to study neurological diseases The Netherlands Brain Bank: high quality human brain tissue to study the molecular neuropathology of brain diseases Annemieke Rozemuller Molecular profiling of reactive glia in Alzheimer's disease Marie Orre mice Coffee The genetics and molecular biology of retinal diseases Arthur Bergen Lunch Genome Wide Association Studies (GWAS) to decipher Danielle Posthuma complex brain disorders Vanishing white matter diseases Marjo van der Knaap Closing symposium of the course Swammerdam Lecture Andrea Luthi Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland Title: "Defining the neuronal circuitry of fear" Drinks END OF COURSE

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