PhD courses organized by

the Lemanic Neuroscience Doctoral School

Autumn 2008

Spring 2009

More information:

http://www.unil.ch/ln/page56882.html

http://moodle.unil.ch/course/category.php?id=52

Measurements and analysis of neurophysiological signals

Sara Gonzalez

Electrical Neuroimaging Group, HUG, Geneva

2 ECTS 1. Summary:

This module will provide a basic survey of some elements from techniques of recording, physics and signal/image processing that are most often employed within neuroscience research. The course aims to acquaint advanced undergraduates and beginning graduate students with inter-disciplinary approaches to measure, understand and analyze neuro-physiological signals (neuroscience data) and their underlying processes.

The Signal Processing part will introduce the basic theory underlying the analysis of bioelectrical signals in the time, frequency and combined time frequency domain. The student will become familiar with 1) bioelectric signals that can be recorded from animals and humans. 2) Signal processing procedures with attention to relative advantages and disadvantages, including instrumentation requirements and examples. 3) Mathematical models that relate signal parameters to physiological events. The image processing part will acquaint the students with the basic elements of image representation, enhancement and image segmentation. Five lectures will provide an introduction to the mechanisms generating neurophysiological signals, an introduction to electricity and magnetism, a description of different neurophysiological recording methods, a discussion on the technical aspects of these recordings, and an introduction on modeling of neuronal signals, with examples taken in the field of clinical neurophysiology.

2. Teachers:

• Sara González, Electrical Neuroimaging Group, HUG, Geneva • Colette Boëx, Neurology Department, HUG, Geneva • Rolando Grave de Peralta, Electrical Neuroimaging Group, HUG, Geneva

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3. Schedule: Mondays 14h-16h, 14 courses of 2h.

Date and room Title Teacher

6th October

Salle 8018 Signal processing-1: Biological signals as time series. Sara Gonzalez

13th October

Salle 8018 Signal processing-2: Time domain analysis Sara Gonzalez

27th October

Salle S3 Signal processing-3: Spectral analysis. Basic concepts. Sara Gonzalez

3rd November

Salle S3 Signal processing-4: Time-frequency analysis. Sara Gonzalez

10th November

Salle S3

Signal processing-5: Introduction to the statistical

analysis of biological signals Sara Gonzalez

17th November

Salle 8018

Image processing-1: Introduction 2D and 3D Image

acquisition and representation, Basic Gray Level

Transformation, Geometric Transformation and

Interpolation

Rolando Grave

24th November

Salle S3 Image processing 2: Image enhancement Rolando Grave

1st December

Salle S3

Image processing-3: Morphological Image processing

and Image segmentation Rolando Grave

8st December

Salle 8018 Electricity and magnetism Colette Boëx

15th December

Salle 8018 Generation of neurophysiological signals Colette Boëx

5th January

Salle 8018 Different neurophysiological recordings Colette Boëx

12th January

Salle 8018 Technical aspects of neurophysiological recordings Colette Boëx

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19th January

Salle S3

Introduction on modelling of neurophysiological

signals Colette Boëx

26th January

Salle S3 Exam

4. Location: rooms 8018 and S3, CMU, Geneva 5. Exam type: to be confirmed

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Experimental Neurotoxicology

Paul Honegger & Florianne Tschudi-Monnet IP (Institute of Physiology), Univ. of Lausanne

1 ECTS

1. Goals:

Presentation of the nervous system specificities in relation to toxicity (blood brain barrier, developmental neurotoxicology, neuropathy,) and of several mechanisms of toxicity (interferences with metabolism, oxidative stress, excitotoxicity, brain inflammation…) Previous knowledge in biology and/or in medicine is required.

2. Contents:

• mechanism of toxicity of several classes of neurotoxicants (heavy metals, drugs, pesticides, cannabinoids)

• potential role of neurotoxicants in the etiology of neurodegenerative diseases • experimental approach, from clinical symptoms to cellular and molecular effects • introduction to reglementary toxicology

3. Bibiography:

• Tilson and Harry. 1999. Neurotoxicology, in: Target Organ Toxicology series, Francis and Taylor, Philadelphia.

• Isaacson and Jensen. 1992. The Vulnerable Brain and Environmental risks, vol 2, in: Toxins in Food, Plenum Press, New York.

• Pentreath. 1999. Neurotoxicology in Vitro. Taylor and Francis, Philadelphia. Teachers: Paul Honegger & Florianne Tschudi-Monnet

4. Suggested schedule: Fridays from 8h30-10h

• 17 October: Introduction, BBB - salle APP/DBCM - PH • 24 October: Models, Endpoints, Reglementation - salle APP - FTM • 31 October: Excitotoxicity - Petit auditoire - FTM • 7 November: Interferences with metabolism - salle APP - PH • 14 November: Brain inflammation, Glial reactivities - salle APP - FTM • 21 November: Environmental Toxicants and Neurodegenerative diseases - salle APP - FTM • 28 November: Oxidative stress, Cell death - petit auditoire - PH • 5 December: Drugs of abuse - salle APP - PH • 12 December: Cannabis - salle APP - FTM • 19 December: Presentation of students work - salle APP - PH + FTM

5. Location: La salle APP et le petit auditoire se trouvent au Bugnon 9, dans l'école de Médecine et le

DBCM (Département de biologie cellulaire et moléculaire). La salle d'APP se trouve au rez,

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derrière les armoires vestiaires, à gauche en entrant. Le petit auditoire se trouve dans le même bâtiment, mais au premier étage.

6. Exam type: the students will prepare a report (about 5 pages) about a topic related with the course

and will present it on the last day of course (max. 15 min).

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Outils statistiques et analytiques pour les sciences de la santé

Alfio Marazzi

Institut universitaire de médecine sociale et preventive (IUMSP), Univ. of Lausanne

2-2.5 ECTS

(Course in French) 1. Programme:

7 Nov. vendredi 9-13h: Statistique descriptive Types de variables, histogramme, boxplot, moyenne, médiane, proportion, mesures de variabilité, normalité, transformation de variables 13 Nov, jeudi 15-18h: Estimation et intervalle de confiance Population et échantillon, distribution d'un estimateur, espérance et erreur-type, concept d'intervalle de confiance, intervalle de prédiction 14 Nov, vendredi 9-12h: Comparaison entre deux groupes Différence de moyennes, différence de moyennes standardisée, différence de proportions, odds ratio, principes des différents types d'étude pour comparer deux groupes 21 Nov, vendredi 9-13h: Tests statistiques Hypothèse nulle et alternative, valeur p, t-tests, tests du chi-carré, tests non-paramétriques, tests pour observations pairées, puissance d'un test et taille d'échantillon, tests d'équivalence, tests multiples

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28 Nov. vendredi 9-12h: Analyse bivariée Scatterplot, covariance et corrélation, meilleur prédicteur linéaire, corrélation de Spearman, coefficient gamma, test d'indépendence du chi-carré 5 Dec. vendredi 9-12h: Le modèle de régression simple Inférences classiques pour la régression simple 12 Dec. vendredi 9-13h: Introduction à la régression multiple Ajustement du modèle de régression multiple Inférences classiques pour la régression multiple 18 Dec. jeudi 9-13h: Introduction è la régression logistique Introduction à l'analyse de survie ---------------------------------------------------------- Il est possible d'ajouter deux séances sur le bootstrap….. dates ? Le bootstrap I : Introduction au bootstrap Intervalles de confiance bootstrap Tests bootstrap pour la la comparaison de deux groupes Le bootstrap II : Bootstrap pour la régression simple Bootstrap pour la régression multiple

2. Intervenants:

• Alfio Marazzi, IUMSP, Univ. of Lausanne • Valentin Rousson • Jean-François Knebel, CHUV, Lausanne

3. Lieu: Quartier UNIL-CHUV, Bugnon 21 (salle à déterminer)

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Topics and Methods in Brain Development

Cécile Lebrand Department of Cell Biology and Morphology (DBCM), Univ. of Lausanne

3 ECTS

1. Summary:

This practical and lecture course is designed for neuroscientists interested in applying their expertise to the study of mouse nervous system development. Lectures will provide the conceptual basis on stem cells, axonal guidance, neuronal migration and differentiation, while laboratory practicals will provide knowledge on key methods in this field. Experimental techniques to be covered include:

• in vitro culture (neurospheres, primary neurons, explants and organotypic slices) • in vitro transplantation and electroporation on slices • confocal time-lapse video microscopy (demo) • in utero electroporation (demo)

This course will consist in a series of lectures in the morning, and practicals in the afternoon. Each speaker will give a long general introduction in his field and a talk about his own research results (in total two periods of 45 minutes). We can accept maximum 12 students. The practical courses will be duplicated, with 6 students per working station.

2. Teachers:

• Yvan Arsenijevic, Service Universitaire d'Ophtalmologie, Lausanne, Switzerland. • Lebrand Cécile, DBCM, UNIL, Switzerland • Roman Chrast, Department of Medical Genetics, UNIL, Switzerland • Hubert Fiumelli, Department of Physiology, UNIL, Switzerland • Sonia Garel, INSERM U784, Ecole Normale Supérieure, Paris, France • Jean-Pierre Hornung, DBCM, UNIL, Switzerland • Denis Jabaudon, CMU, Switzerland • Esther Stoeckli, Developmental Neuroscience, University of Zurich, Switzerland

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3. Schedule: 5 consecutive days, from November 24-28th

Monday 24/11 Tuesday 25/11 Wednes.

26/11 Thursday 27/11 Friday 28/11

8h15-10h Lecture 1 Lecture 3 Lecture 5 Lecture 7

10h15-12h Lecture 2 Lecture 4 Lecture 6 Lecture 8

Preparation student’s presentation

13h – 15h

Electro in utero (demo)

H.F.

13h – 15h

confocal time-lapse video microscopy (demo)

H.F. 13h -17h

Group A

Neurospheres and primary neuronal culture

Y.A/C.L./J-P.H.

Explant

R.C.. 15h – 17h

Organo transplantation /electropo in vitro

S.G. / C.L

15h – 17h

Organo transplantation /electropo in vitro

S.G. / C.L

13h – 15h

Organo transplantation /electropo in vitro

S.G. / C.L.

13h – 15h

Organo transplantation /electropo in vitro

S.G. / C.L. 13h -17h

Group B

Explant

R.C.

Neurospheres and primary neuronal culture

Y.A/C.L./J-P.H. 15h – 17h

Electro in utero (demo)

H.F.

15h – 17h

confocal time-lapse video microscopy (demo)

H.F.

Student Evaluation

Followed by Farewell Beer hour with all participants

4. Location: DBCM, Bugnon 9, Université de Lausanne

5. Exam type: Oral presentation

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Inborn Diseases of Metabolism Affecting Brain Development

Olivier Braissant

Laboratory of Clinical Chemistry, CHUV, Lausanne

1 ECTS

1. Summary:

Monogenic inborn errors have a prevalence of 1:100. Among these, metabolic diseases affecting brain development have a prevalence of 1:1500. These numerous, but rare and often orphan diseases deeply affect the brain development and functions. This course will provide an overview of the main metabolic diseases affecting brain development, from their genetic to their phenotypic (clinical, pathophysiological and biochemical) description. Students will also learn that these rare diseases also provide an excellent opportunity to analyze brain development and functions from an often unrecognized domain in neuroscience: Intermediary metabolism, which regulate all cellular essential pathways.

2. Schedule: Wednesday 12h15 – 14h

November 5th, 2008: Metabolism and cerebral function during development. Isolation and contacts between CNS and periphery : development of blood-brain barrier and choroid plexus. November 19th, 2008: Hyperammonemia in newborns and children : consequences for brain development. November 26th, 2008: Creatine deficiencies.

December 10th, 2008 : Serine deficiencies, Deficiency in glucose transporter GLUT1, Phenylketonuria and BH4 deficiencies. Methylmalonic acidemias. December 17th, 2008 : MCAD deficiency (Medium Chain Acyl-CoA Dehydrogenase), Galactosemia, Biotinidase deficiency, Non-cetotic hyperglycinemia, Homocystinuria.

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3. Background: The course does not require any particular background for PhD students in

neuroscience. 4. Location: Lausanne, CHUV, Salle de séminaire n° 4 – BH – Niv. 08 (same level and next to the

main auditoriums of the CHUV). 5. Exam type: All students receive the same question but applied for each student to a different

metabolic disease. A short written report (max 3 pages) has to be handed out 3 weeks after

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Introduction to fluorescence imaging for the analysis of living cells

Jean-Yves Chatton

DBCM and CIF, Lausanne

1 ECTS 1. Summary:

In parallel with theoretical lectures, demonstrations will be proposed on the confocal microscopes of the Cellular Imaging Facility (details and registration on site).

2. Schedule: Tuesdays from 12:15 - 14:00

13 January 2009: Basics of widefield and confocal fluorescence microscopy 20 January 2009: Confocal microscopy (cont.) 27 January 2009: Modes of image formation and acquisition. Dynamic recording of cellular functions by fluorescence imaging 3 February 2009: Measurements of intracellular calcium, pH, and sodium and their application to cellular signaling. Problems related to imaging of living cells. 10 February 2009: Other optical applications (proposed topics): Fluorescence recovery after photobleaching (FRAP), flash photolysis, multiphoton microscopy, evanescent wave microscopy, laser tweezers, fluorescence resonance energy transfer (FRET), digital holography microscopy, optical contrasting methods (phase contrast, DIC)

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Désir, plaisir et dépendance : une histoire moderne de l'addiction

Benjamin Boutrel

SUPEA, CHUV, Lausanne

1 ECTS

(Course in French*)

1. Summary (in French):

L’addiction n’est pas un trouble du plaisir mais bel et bien une pathologie de l’envie. Toutefois, sans quête de plaisir, il n’y a ni motivation, ni désir. Autrement dit, le moteur de toute motivation est justement la satisfaction d’une envie ou d’un désir, ce qui se traduit par la manifestation subjective de la sensation de plaisir.

Si le moteur de toute motivation est la satisfaction d’une envie ou d’un désir, on peut imaginer

que le cerveau est capable d’anticiper la manifestation subjective de la sensation de plaisir. Clairement, il existe dans le cerveau un ensemble de structures capables d’intégrer les besoins de l’organisme. C’est ainsi que la régulation de la faim, de la soif, de la température corporelle vont entraîner l’exécution de comportements appropriés pour répondre aux besoins vitaux de l’organisme. Au milieu des années 1950, Olds et Milner ont mis en évidence que des rats étaient capables de fournir un effort considérable pour stimuler électriquement certaines parties de leur cerveau. La démonstration, également reproduite chez l’homme, a permis de développer le concept d’un réseau neuronal responsable d’une fonction de récompense cérébrale. C’est cette fonction qui pousse à la réalisation d’un objectif donné. Elle peut grossièrement se comparer au corrélat neurobiologique de la recherche de gratification, c’est-à-dire la volonté d’obtenir ou d’assouvir un objet de satisfaction, état d’esprit souvent lié à une certaine forme d’exaltation, voire d’excitation. C’est justement cette fonction qui est piratée et détournée au profit de tout comportement addictif.

Thèmes abordés pendant ces cours :

19 février : Du désir, du plaisir, de la dépendance et des mauvaises habitudes: Introduction des

concepts et définitions - Rappels historiques. 5 mars : De l'alchimie du conditionnement: structures cérébrales impliquées. 12 mars : De l'envie et du besoin des souris et des hommes: moteurs de la motivation. 19 mars : De l'euphorie et des excès: Psychopharmacologie des psychostimulants (cocaïne). 26 mars : De la désinhibition à la jouissance ... à la gueule de bois: Psychopharmacologie de l'alcool et des opiacés.

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2 avril : De l'éveil cortical à la douce ébriété ou l'écueil des drogues légales et des drogues dites douces: Psychopharmacologie du tabac (nicotine) et du cannabis. 9 avril : Synthèse et conclusion: entre l'envie irrépressible et le désir inconcevable, ou la mauvaise habitude sans nécessairement le besoin pathologique.

2. Teacher: Dr. Benjamin Boutrel, PhD

SUPEA, CHUV, Lausanne

3. Suggested schedule: 7 courses of 2h during the Spring semester, starting February 19th. Thursday afternoon, from 5-7 pm.

4. Location: Unil-Dorigny, Amphipôle 201.

5. Exam type: 1-3 sessions of article analysis. Students would choose one paper among the papers

proposed (3-5 per topic) and they would work by pairs. Themes for these article discussion sessions would be:

• DA as viewed today versus yesterday. • Addiction: brain sensitization, bad habit or dependence? • Impulsivity as a vulnerability trait of addiction

(*) The course will be given in French because it is offered also to Bachelor/Master students and for MD continuous education (Department of Psychiatry). If students are not familiar with French, they can request support in English (handout with comments for instance). Dr. Boutrel will be happy to reply in English to any questions anytime during the presentation.

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Statistics for Life Sciences

Rolando Grave de Peralta Electrical Neuroimaging Group, HUG, Geneva

1.5 ECTS

1. Summary: This course will provide a basic survey of some statistical methods used in life sciences. The program consists of two main blocks associated with standard (parametric and non parametric) methods and non parametric randomization methods. Course materials will include the basic statistics usually found in introductory courses but also will include a balanced emphasis on nonparametric methods. We will cover basic concepts in data analysis (including e.g., histograms, punctual and interval estimation, etc) using both parametric and non parametric methods. The student will become acquainted with basic hypothesis testing with parametric and non-parametric procedures as well as linear and non linear measures of correlation and the methods to evaluate their significance. Randomized (one way) multivariate ANOVA as used for the analysis of high dimensional (e.g. EEG inverse solutions or fMRI) data with singular covariance matrices will be also discussed. All topics will be composed by a theoretical discussion and practical sessions with Matlab examples. The course is composed of nine sessions of two hours as follows:

1) Basic concepts of random variables. 2) Basic concepts of probability and Distributions. 3) Hypothesis testing: standard parametric and non parametric methods 4) Practice and introduction to interval estimation and resampling terms. 5) Hypothesis testing: non parametric randomization methods 8) One Way Analysis of variance: parametric, standard non parametric and resampling methods. 7) Practice and discussion of problems proposed by the students. 8) Resampling of time series and measures of correlation. 9) Examination: two-hour written exam. Short questions with access to course materials.

2. Teachers:

• Rolando Grave de Peralta and Sara González, Electrical Neuroimaging Group, HUG, Geneva • Sara González, Electrical Neuroimaging Group, HUG, Geneva • Colette Boëx, Neurology Department, HUG, Geneva

3. Schedule: Mondays 14h-16h. March 2, 9, 23 and 30 / April 6, 20 and 27 / May 4 and 11. 4. Place: room 7001, CMU, Geneva.

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Creativity, sleep and the dreaming brain

S. Schwartz & U. Wagner Neuroscience Department, University of Geneva

2 ECTS

1. Summary: The goal of this seminar series is to give an overview of recent cognitive neuroscience approaches to the dreaming brain. It will address questions like:

• What does the dreaming brain tell us about cognitive processes occurring during sleep? • Is dreaming a random by-product of REM sleep physiology that does not serve any adaptive

neurobiological function? • Do sleep and dreaming promote memory reprocessing and creativity? Are there suitable

neuroscientific methods to study dream experience and creative thinking?

These topics will be also discussed:

• Historical review of the scientific theories about dreaming and the dreaming brain. • Experimental approaches to the study of cognition during sleep and creativity. • Recent brain imaging data collected during sleep, as well as dreaming disorders in

neurological patients, suggest that some specific brain regions are critically involved during normal dreaming (while other regions do not seem to contribute much to dreaming).

• Relationship between dream content and waking life, cognitive abilities, and personality, as well as dreaming in patients with emotional and sleep disorders such as depression and insomnia.

• How might dreaming question the status of conscious experiences, here produced by the sleeping brain in the absence of external stimulation?

• Does sleep influences learning and creativity?

Speakers will be encouraged to present practical aspects of their research, if appropriate. Participants will be asked to read articles related to the topics addressed and to actively contribute to discussion sessions.

2. Local and external speakers:

Local speakers will include:

• R. Schmidt (Psychology Department, University of Geneva) • S. Schwartz (LabNic, Geneva Neuroscience Center)

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• U. Wagner (LabNic, Geneva Neuroscience Center)

External speakers will include:

• A. Fink (University of Graz, Austria): works on neural bases of creativity • A. Revonsuo (Turku University, Finland): works on cognitive and emotional aspects of the dreaming brain. Proposed the Threat Simulation Theory of dreaming. • M. Schredl (Central Institute of Mental Health, Mannheim, Germany): studies phenomenal aspects of dreaming, tests for correlations with variables such as gender, age, personality, etc.

3. Suggested schedule: Seven sessions between March 4-18th 2009, following this format:

11h-12h: presentation by PhD students of 2-3 articles related to the session’s topic 12h-13h: talk by local or invited speakers 13h-14h: lunch with the speakers 14h-15h: demonstration and discussion with the speakers

Wednesday March 4th Sophie Schwartz, LabNic, Geneva Neuroscience Center Neuroscience of dreaming Thursday March 5th Antti Revonsuo. Centre for Cognitive Neuroscience, University of Turku, Finland Dreaming, virtual realities, and the threat simulation theory of dream function Monday March 9th Ullrich Wagner, LabNic, Geneva Neuroscience Center Sleep, memory, and creativity Tuesday March 10th Andreas Fink, Department of Psychology, University of Graz, Austria Creativity and the brain Wednesday March 11th Ralf Schmidt, FAPSE & NCCR Affective Sciences, University of Geneva When problem solving gets stuck: Impulsivity, counterfactual processing, and insomnia Tuesday March 17th Michael Schredl, Central Institute of Mental Health, Mannheim, Germany How creative is dreaming? Wednesday March 18th Sophie Schwartz and Ullrich Wagner, LabNic, Geneva Neuroscience Center Conclusions and artist performance (to be confirmed)

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4. Location: HUG & CMU, Geneva (to be confirmed)

5. Exam type: each student will present an article for one of the afternoon sessions and will write a summary of the discussion that took place during the session.

6. Registration: must be done by filling out this on-line form before February 16th.

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Neurodegenerative Diseases

Beat Riederer DBCM, Unil

2 ECTS

1. Summary:

Neurodegenerative diseases are becoming more frequent with an increasing longevity of the human population and therefore age-related diseases are becoming more and more of importance for public health. This module will address basic elements in neuroanatomy, aging and mechanisms of neurodegenerative diseases (Alzheimer’s disease, Fronto-Temporal Dementia, Parkinson’s and Huntington disease). The module is composed of ex-cathedra courses and practical work to identify a normal or pathological brain. Recent developments in research on neurodegenerative diseases is presented and the different mechanisms are discussed. In addition, participants will have to discuss recent publications on neurodegenerative diseases and discuss the various views on the etiology of Alzheimer's disease. One of the highlights is the visit of a geriatric hospital and the presentation of clinical cases. At the end of the module, selected topics of neurodegenerative diseases will be presented by the participants in form of a short presentation, "showdown" (i.e. is AD an immunopathy, a tauopathy, an amyloidopathy, or is it related to a receptor decline, to oxidation, toxic substances or inflammation).

2. Teachers: BR Beat.Riederer@unil.ch GL Genevieve.Leuba@chuv.ch CB Constantin.Bouras@unige.ch AS Armand.Savioz@hcuge.ch EK Eniko.Kovari@unige.ch GG Gabriel.Gold@hcuge.ch SJ Sabine.Joray@chuv.ch FT Florianne.Tschudi-Monnet@unil.ch PM Philippe.Maeder@chuv.ch

3. Schedule:

Date Site 14h-16h 16h-18h Responsible

4.3.2009 DBCM C: Neuroanatomy ext./int. Demo BR

18.3.2009 CNP C: Aging C: Genetics, models and cascades GL & AS

2.4.2009 CHUV Videos and patients SJ

15.4.2009 DBCM C: Proteopathies & Markers S: Paper discussion BR

22.4.09 DBCM C:Toxicology & Inflammation FT

29.4.2009 BI C: Neuropathology ND Demo CB & EK

13.5.2009 DBCM C: Imaging of ND S:paper discussion, controversial ND PM, BR, GG, CB

27.5.2009 BI S: showdown, student presentation & discussion all interested C Cours DBCM Departement de Biologie Cellulaire et de Morphologie, UNIL Demo dissection lab CNP Centre des Neurosciences psychiatriques, CERY, Lausanne S paper discussion BI Belle Idée, HUGE G

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Topics in Cognitive Neuroscience: Advanced course on EEG recording and analysis

Christoph Michel & Micah Murray

CMU, Unige & CHUV, Unil

2 ECTS

1. Summary: The course will focus on specific methodological approaches to functional brain imaging and is intended for students who have previous background and experience in EEG. This is the suggested list of topics that will be discussed:

- Spatial analysis of spontaneous and EEG (Michel et al.) - Analysis of Cognitive ERP (Murray et al.) - Single Trial EEG Analysis (De Lucia et al.) - EEG source analysis (Grave de Peralta et al.) - Analysis of intracranial Local Field Potentials (Cappe et al.,) - Analysis of brain rhythms (Gonzalez et al.) - EEG and fMRI combination (Britz et al.) - Applications to attention, language & plasticity (Rihs, Toepel, Spierer)

The format will be interactive and will include:

1) a general theoretical overview of a given topic 2) a critical discussion of 1-2 papers that need to be read by the students prior to each session.

Students are also encouraged to propose papers or experimental issues based on their own interest. Each course will be directed by a main “tutor” who is a renowned researcher in the field.

2. Location: to be announced

3. Schedule: 10 courses on Friday afternoons from 2-5 pm, March 6th – May 29th 2009.

March 6th Margitta Seeck and Laurent Spinelli (HUG) Analysis and interpretation of clinical EEG and intracranial EEG

March 13th Verena Brodbeck and Agustina Lascano (HUG) Clinical High Resolution EEG and SEP

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March 20th

Charles Quairiaux (CMU) and Céline Cappé (UNIL): Animal electrophysiology March 27th Rolando Grave and Sara Gonzalez (HUG) EEG source imaging and time frequency analysis

April 4th Sara Gonzalez and Rolando Grave (HUG): EEG-based Brain Computer Interface

April 24th

Micah Murray (CHUV) Spatio-temporal analysis of event-related potentials

May 1st

Christoph Michel (HUG/CMU) EEG mapping and microstate analysis

May 15th

Marzia De Lucia (CHUV): Single trial analysis of EEG

May 22nd

Tonia Rihs and Vincent Rochas (CMU): Combination of EEG and TMS

May 29th Juliane Britz and Frederic Grouiller (CMU/HUG) Combination of EEG and fMRI

4. Exam type: written exam on last day of the course

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Practical course on Molecular Neurobiology

Bernadett Boda CMU, Geneva

3 ECTS

1. Summary: This module will introduce the students to the theory and practice of basic molecular biological techniques. We will focus on modern techniques allowing for gene identification and functional studies in the particular context of neurobiology. All students will participate in short projects to get hands-on experiences in the following topics: • Analysis of gene expression (Laser-capture microscope, microarray, quantitative RT-PCR,

bioinformatics) • Cloning and engineering of expression vectors and transgenic animals • Gene transfer methods and RNA interference • Protein analysis (proteomics, Western blot)

2. Previous knowledge:

Previous knowledge in basic molecular biology is required to take this course. From the following books, is recommended to read those chapters related to the course's program: • Jean-Claude Kaplan et Marc Delpech : Biologie moléculaire et médecine, Ed : Médecine-

Sciences Flammarion, 3ème partie : Les outils de génie génétique, or • BERG Jeremy M., TYMOCZKO John L., STRYER Lubert: Biochemistry (6th Ed.), Ed:

W. H. Freeman and Company: the basis of chapter 4 (DNA, RNA and flow of genetic information) and chapter 5 (Exploring genes and genomes).

Reading of the recommended book will be tested at the beginning of the course and, without this prerequisite, students may be excluded from the course.

3. Location: CMU, Geneva, 1st floor.

4. Exam type: The exam will be based on problems, received by e-mail from the course organizer. Students will have one day to answer.

5. Registration: before the end of January, for a maximum 10-12 students.

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6. Schedule: 5 consecutive days, March 30th - April 3rd 2009 Preliminary program of 2009: Theoretical courses in BLUE, practical courses in BLACK: 1st day 9-10h Microarray (Patrick Descombes, 1010, 1st floor) 10-11h Proteomics (Natacha Turck, 1010) 11-13h Bioinformatics (Stéphane Konig, library, 3rd floor)

lunch 14-15h Laser capture microscope (Erwin Van der Burg, 6th floor) 15-17.30h RNA extraction and analysis (Bernadett Boda, Mylène Docquier, 1004C) 2nd day 9-10h Reverse transcription (Bernadett Boda, Mylène Docquier, 1004C) 10-11h Real time quantitative PCR (qPCR): principles(Mylène Docquier, 1004C) 11-13h qPCR II: application (Mylène Docquier, 1004C)

lunch 14-15h Transfection and RNA interference (Bernadett Boda, 1010) 15-16h Viral vectors (Stephane Konig, 1010) 16-17h Transfection (lipofection) (Aline Dubos, 1014) 3rd day 9-13h Site-directed mutagenesis and construction of fusion protein (Stéphane Konig, Vesna

Cvetkovic, 1004C) Gel extraction and purification of DNA Ligation lunch

14-17h Transformation (Stéphane Konig, Vesna Cvetkovic, 1004C) Transfection (gene gun) (Aline Dubos, 8040)

16-17h Transgenic models (Virginie Nepote, 1010)

4th day 9-11h Plasmid purification and digestion (Stéphane Konig, Vesna Cvetkovic, 1004C) 11-13h qPCR III: results/analysis (Mylène Docquier, 1004C)

lunch 14-17h DNA electrophoresis (Stéphane Konig, Vesna Cvetkovic, 1014)

Developmental gene expression analysis (Virginie Nepote, 1014) Protein extraction and dosage (Aline Dubos, 1014)

5th day 9-13h Western blot (Aline Dubos, 1004C)

lunch 14-17h Results of embryonic gene expression analysis (Virginie Nepote, 1004C)

Results of transfections (Aline Dubos, 8040)

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Molecular and cellular aspects of nerve regeneration

Anne Zurn

CHUV, Lausanne

1 ECTS 3. Summary:

This course addresses the molecular and cellular aspects of nerve regeneration in the central and peripheral nervous system following injury: the capacity of nerves to grow, their environment, the glial response to injury, inflammation, molecular mechanisms of axonal growth-inhibition in the CNS, experimental strategies to improve recovery upon peripheral nerve lesion, strategies to improve repair following spinal cord injury (paraplegia).

4. Schedule: Tuesdays from 12:30 - 14:00

21 avril 2009 - Lésion nerveuse et régénération : le système nerveux périphérique 28 avril 2009 - Stratégies expérimentales pour améliorer la récupération fonctionnelle en périphérie 5 mai 2009 - Inflammation, dégénérescence et régénération: le système nerveux central 12 mai 2009 - Les cellules gliales: mécanismes moléculaires de l'entrave à la régénération 19 mai 2009 - Paraplégie: stratégies expérimentales après lésion de la moelle épinière

5. Deadline: Registration can be made until March 15th 2009. Minimum 3 students.

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Connectivity

Henri Volken IMA (Institute of applied mathematics), Univ. of Lausanne

1 ECTS

1. Summary: We are more and more conscious to live in a connected world. Internet, mobile telephony and global positioning systems have made the notion of “network” ubiquitous in scientific and everyday language. But on reflection, we have always been surrounded by networks on every scale. Just think of transportation, communication or social networks, as well as cultural or ecological ones. On the biological and molecular scale, we also find networks everywhere: in connection with cells, proteins or genes for instance. For about ten years, science has been trying to understand and analyse the mathematical structure and characteristics of networks. Within the context of complexity theory, such important phenomena as “small world”, “scalefreeness” or “cohesiveness” are now well described and understood. Mathematical study of networks is essentially based on graph theory. But our stance in this module is to stand back from the usual approach and start off with the elementary concept of “connectivity” in order to get a more general picture. We will broach epistemological (connexionnism), topological (Q-analysis) and statistical (graphical models) topics in addition to the more standard graph theoretical approach. This teaching module, combining lectures and laboratory activities, is intended for an audience concerned with conceptual, as well as mathematical and practical issues on this subject. Its purpose is a better understanding of the way the world around us is connected.

2. Foreseen teachers:

Andres PEREZ-URIBE, Jean-Philippe ANTONIETTI, Jorge PEÑA, Olivier JORAND, Yannick ROCHAT, Arnaud THEVENET and Henri VOLKEN.

3. Suggested schedule: 2-5:30 pm. Thursdays June 4th, 11th and 18th, and Wednesday June 24th

2009. 4. Location: UNIL-Sorge, Anthropole 4129

5. Exam type: Oral exam (to be confirmed)

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MS courses organized by

the Unil – FBM

Spring 2009 Brain Development – 1.5 ECTS

Sensory Functions – 1.5 ECTS

Neuron-glia biology – 1.5 ECTS

Modulation of synaptic transmission – 1 ECTS

Natural and pathological neuronal death – 1 ECTS

Introduction to psychiatric neuroscience – 1.5 ECTS

Schedule available here.

All courses take place at the DBCM, Rue du Bugnon 9, Lausanne

Updated information: http://www.unil.ch/ln/page56882.html

Registration by e-mail to Sonia.Bolea@unil.ch

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MS courses organized by

the Geneva Neuroscience Center

Spring 2009 Introduction aux neurosciences cognitives et affectives – 2 ECTS

Neurobiologie des états de vigilance – 2 ECTS

Chimioreception – 2 ECTS

Neurosciences psychiatriques – 2 ECTS

Imagerie PET et IRM en neurosciences – 2 ECTS

Description and registration for these courses and others organized by the FPSE and Sciences:

http://neurocenter.unige.ch/education.php?lang=en

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