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4th SIENA MEETING

FROM GENOME TO PROTEOME:
KNOWLEDGE ACQUISITION AND REPRESENTATION

Sept. 4-7, 2000, Siena, Italy
Auditorium Istituti Biologici, Via Laterina 8, Siena


Main lectures:

Decoding the human genome (S. Broder)
How proteins speak with one another in cell signaling (E. Fischer)
Genetics and epigenetics (J. Burn)
Modelling nature complexity (H. Atlan)

Plenary sessions:

Sample selection and preparation
Separation Sciences
Detection methods
Identification, characterization and quantitation
Automation
Imaging and data display
Modelling
Data and knowledge bases
Data analysis and interpretation
Molecular networks and functional studies

 

Parallel sessions:

Mass spectrometry and related technologies
Pharmacology and toxicology
Signaling pathways
Oncology
Prokaryotes
Eukaryotic cells and tissues
Plants
Rat and mouse

Posters



 
SUNDAY SEPTEMBER 3rd
16.00 – 19.00
Registration (Main Auditorium, Via Laterina,8)
19.30
Welcome Party at San Francesco’s cloister
(sponsored by Large Scale Biology Corp.)


 

MONDAY SEPTEMBER 4th
8.00 – 9.00
Registration


 

9.00 – 9.10
WELCOME ADDRESS
Prof. P. Tosi (President of Siena University)
Prof. P. E. Valensin (Chief of Department. of Molecular Biology)


 

9.10 – 9.15
OPENING REMARKS
D.F. Hochstrasser, J.-C. Sanchez, L. Bini, V. Pallini


 

OPENING MAIN LECTURE


 

9.15 – 10.00
DECODING THE HUMAN GENOME
S. Broder(Celera Genomics, Rockville, MD, USA)


 

PLENARY SESSION

KNOWLEDGE ACQUISITION

A1) Sample Selection and Preparation

Chairperson: T. Rabilloud


 

10.00 – 10.20
TOWARDS A TOOLSET OF METHODS FOR COMPREHENSIVE PROTEOME ANALYSIS
G. L. Corthals, L. Tonella, S.G. Gygi, V.C. Wasinger, D.F. Hochstrasser, R. Aebersold, J.-CSanchez(Sidney, Australia; Geneva, Switzerland; Seattle, WA, USA))


 

10.20 – 10.40
ADVANCES IN SAMPLE PREPARATION FOR HIGH THROUGHPUT PROTEOMICS
B. Herbert, A. Castagna, J. Baker, P. G. Righetti, K. Williams (Sydney, Australia; Verona, Italy)


 

10.40 – 11.00
COFFEE BREAK


 

11.00 – 11.20
LASER-CAPTURE MICRODISSECTION AND PROTEOMICS-BASED APPROACHES IN CANCER RESEARCH
R.E. Banks, R Craven, P. Harnden, M. Rogers, P. Millner, D. Pappin, P.J. Selby (Leeds, London, UK)


 

A2) Separation Sciences
Chairperson: J. Klose


 

11.20 – 11.40
CHROMATOGRAPHY-BASED PROTEOMIC ANALYSES: IDENTIFICATION AND QUALITATIVE COMPARISON
S. D. Patterson(Thousand Oaks, CA, USA)


 

11.40 – 12.00
RAPID QUANTITATIVE MEASUREMENTS OF PROTEOMES
R. D. Smith, L. Pasa Tolic, M. S. Lipton, P. K. Jensen, G. A. Anderson, T. D. Veenstra (Richland, WA, USA)



 

12.00 – 12.20
Polymer MICRO-Chips for FAST Protein Analysis
A. Schwarz, F. Reymond, J. S. Rossier, M. Faupel, J. van Oostrum, H. H. Girault (Lausanne, Monthey, Basel, Switzerland)



 

12.20 – 12.40
THE SINGLE CELL PROTEOME PROJECT
N. J. Dovichi, Z. Zhang, S. Krylov, E. Arriaga, S. Hu, D. Michels (Alberta, Canada)



 

12.40 - 14.30
LUNCH (sponsored by Amersham Pharmacia Biotech)



 

14.30 – 14.50
IPG-DALT: STATE OF THE ART
A. Görg, G. Boguth, A. Harder, C. Obermaier, B. Scheibe, R. Wildgruber, W. Weiss(Freising-Weihenstephan, Germany)



 

14.50 – 15.10
On the adsorption of proteins to the bare silica wall and on the chemical composition of the background electrolyte for minimizing it: a quantitative study
P.G. Righetti, B. Verzola, C. Gelfi (Verona, Milan, Italy)



 

15.10 - 15.30
CIPHERGEN’S PROTEINCHIPÒ SYSTEM: A NOVEL BENCHTOP PROTEOMICS PLATFORM FOR RAPID BIOMARKER DISCOVERY AND VALIDATION
H. A. Davies, E. A. Dalmasso, B. Rich (Palo Alto, CA, USA)



 

ORAL PARALLEL SESSIONS A
MASS SPECTROMETRY AND RELATED TECHNOLOGIES I
Chairperson: J. Vandekerckhove



 

15.40 – 15.55
REACTION OF PROTEINS WITH FREE ACRYLAMIDE, N- SUBSTITUTED ACRYLAMIDES AND ACIDIC AND BASIC IMMOBILINES AT ALKALINE pH VALUES AND ITS IMPLICATIONS IN PROTEOME ANALYSIS
M. Hamdan, E. Bordini, P.G. Righetti (Verona, Italy)



 

15.55 – 16.10
SILICON MICROTECHNOLOGY FOR HIGH SENSITITVITY & HIGH SPEED AUTOMATED PROTEIN IDENTIFICATION
G. Marko-Varga, S. Ekström, D. Ericsson, J. Malmström, J. Nilsson, T Laurell(Lund, Sweden)



 

16.10 – 16.25
QUANTITATIVE PROTEOMICS WITHOUT 2D GELS
K. Parker, Y. Huang, T. Nadler (Framingham, MA, USA)



 

16.25 – 16.40
STRATEGIES FOR COMPREHENSIVE ANALYSES OF HUMAN PROTEOMES
D. W. Speicher, X. Zuo, K. D. Speicher, O. Kolbas, P. Hembach, L. Echan (Philadelphia, PA, USA)



 

16.40 - 17.00
COFFEE BREAK



 

MASS SPECTROMETRY AND RELATED TECHNOLOGIES II
Chairperson: A. L. Burlingame



 

17.00 – 17.15
DEVELOPMENT OF A HIGH DENSITY ADDRESSABLE PROTEIN ARRAY
R. W. Wagner(Lexington, MA, USA)



 

17.15 – 17.30
ADDING VALUE TO GENOMES: DIRECT PROTEIN IDENTIFICATION
IN LARGE GENOMES BY MASS SPECTROMETRY
B. Kuster, P. Mortensen, J. Andersen, A. Podtelejnikov, K. Budin, M. Mann
(Odense, Denmark)



 

17.30 – 17.45
DIRECT SOFTWARE INTERPRETATION OF DE NOVO SEQUENCE
FROM ESI-MS/MS DATA FOR NOVEL PROTEIN IDENTIFICATION
USING BLAST
R. Bordoli, J. Cottrell, E. Kapp, J. Langridge, R. Rachubinski, R. Wozniak,
J. Smith, J. Skilling (Manchester, Cambridge, UK; Edmonton, Canada)



 

17.45 – 18.00
HIGH RESOLUTION PROTEOME ANALYSIS BY FOURIER
TRANSFORM-ICR-MASS SPECTROMTRY: APPLICATIONS TO
TARGET ANTIGENS FOR AUTO-IMMUNE DISEASES FROM COMPLEX
BIOLOGICAL MIXTURES
M. Przybylski(Konstanz, Germany)



 

18.00 – 18.15
ANALYSIS OF PROTEIN DIGESTS FROM 2D GELS USING A MALDI
QIT TOF MASS SPECTROMETER
C. Sutton, K. Tanaka, J. Yan, H. Montgomery, M. Dunn (Manchester, Harefield, UK)



 

ORAL PARALLEL SESSIONS B
PHARMACOLOGY AND TOXICOLOGY I
Chairperson: L. Anderson



 

15.40 – 15.55
EFFECT OF ROSIGLITAZONE ON THE DIFFERENTIAL EXPRESSION
OF DIABETES AND OBESITY ASSOCIATED PROTEINS IN OB/OB
MICE: MOLECULAR TARGETS OF INSULIN SENSITIZATION AND
ISLET CELL DYSFUNCTION
J.-C. Sanchez, V. Rouge, G. Rosselat, M. Sennitt, D. Chiappe, M. Heller,
S. Wang, A. Pallett, D. F. Hochstrasser, M. Cawthorne
(Geneva,Switzerland; Buckingham, UK)



 

15.55 – 16.10
PROTEOMICS OF RAT SERUM: INFLAMMATION AND
ANTIINFLAMMATORY DRUGS
I. Miller, I. Eberini, P. Villa, M. Fratelli, D. Agnello, P. Ghezzi, L. Puglisi,
M. Gemeiner, C. R.Sirtori, E. Gianazza(Vienna, Austria; Milano, Italy)



 

16.10 – 16.25
CHANGES IN HEPATIC PROTEIN LEVELS FOLLOWING TREATMENT
WITH ACETAMINOPHEN OR ITS NON-TOXIC REGIOISOMER 3-
ACETAMIDOPHENOL
M. Fountoulakis, P. Berndt, U. A. Boelsterli, F. Crameri, M. Winter,
S. Albertini, L. Suter (Basel, Switzerland)



 

16.25 – 16.40
PROTEOMIC ANALYSIS OF JET FUEL TOXICITY
F. A. Witzmann (Columbus, IN, USA)



 

16.40 - 17.00
COFFEE BREAK



 

PHARMACOLOGY AND TOXICOLOGY II
Chairperson: F. Witzmann



 

17.00 – 17.15
IDENTIFICATION AND CHARACTERIZATION OF A NOVEL
PROTEIN INDUCED IN THE SYMPATHETIC NERVOUS SYSTEM
FOLLOWING GUANETHIDINE TREATMENT
R.M. Leimgruber, S.A. Aykent, N.R. Siegel, P.T. Manning (St. Louis, MO, USA)



 

17.15 – 17.30
PROTEOMICS TO DISPLAY LOVASTATIN-INDUCED PROTEIN AND
PATHWAY REGULATION IN RAT LIVER
S. Steiner, C.L. Gatlin, J.J. Lennon, A.M. McGrath, A.M. Aponte, A.J. Makusky,
M. C. Rohrs, N.L. Anderson (Rockville, MD, USA)



 

17.30 – 17.45
ARRAY-BASED PROTEOMICS AND THE CHALLENGE OF HUMAN
TISSUES IN HEALTH AND DISEASE
I. Humphery-Smith(Utrecht, The Netherlands)



 

17.45 – 18.00
BIOSENSOR-BASED APPLICATIONS FOR GPCR DEORPHANING
C. Williams, T. Addona, S. Cook, M. Knoppers, D. Meyer. (Cambridge, MA, USA)



 

21.30 - 22.30
CHOIR CONCERT (Chiesa di Santo Spirito, Piazza S. Spirito)
(sponsored by Consorzio Siena Ricerche)



 

TUESDAY SEPTEMBER 5th



 

NOBEL MAIN LECTURE



 

9.00 – 9.45

HOW PROTEINS SPEAK WITH ONE ANOTHER IN CELL

SIGNALING
E.Fischer(Seattle, USA)



 

PLENARY SESSION

KNOWLEDGE ACQUISITION

A3) Detection Methods
Chairperson: M. Dunn



 

9.45 – 10.05
2D FLUORESCENT DIFFERENCE GEL ELECTROPHORESIS
ADDRESSING THE BOTTLENECKS IN 2D BASED PROTEOMICS
APPROACHES
C. Story(UK)



 

10.05 – 10.25
DETECTION DOWN TO ONE MOLECULE
D. Twerenbold(Neuchâtel, Switzerland)



 

10.25 – 10.45
PROTEIN DETECTION BY EXPONENTIAL AMPLIFICATION
C. R. Merril(Bethesda, MD, USA)



 

10.45 – 11.05
MPD ENABLED ULTRA-SENSITIVE METHODS FOR PROTEOMICS
A. K. Drukier, P. Volkovitsky, I. R. Sagdeev, N. Sirotina, P. Berndt,
H. Langen, J. Jacob, M. Cahill, A. Nordheim, R. Gregory, G. Miklos 
(Herndon , Va., Kents, OH, USA; Basel, Switzerland; Tubingen, Germany; Sydney, Australia)



 

11.05 – 11.25
COFFEE BREAK



 

A4) Identification, Characterization and Quantitation
Chairperson: M. Wilm



 

11.25 – 11.45
QUANTITATIVE PROTEOME ANALYSIS: METHODS AND
APPLICATIONS
S. Gygi, B. Rist, T. Griffin, H. Zhao, R. Aebersold(Seattle, WA, USA)



 

11.45 – 12.05
QUANTITATION AND DE NOVO SEQUENCING OF PROTEINS FROM
1- AND 2D GELS BY ISOTOPIC N-TERMINAL LABELLING
M. Quadroni, M. Münchbach, G. Miotto, P. James(Zürich, Switzerland)



 

12.05 – 12.25
MASS SPECTROMETRY AND DATABASE INTERROGATION
STRATEGIES FOR GLOBAL PROTEIN IDENTIFICATION
A. L. Burlingame(San Francisco, CA, USA)



 

12.25 - 12.45
PROTEIN IDENTIFICATION BASED ON MALDI-POST SOURCE
DECAY MS: NOT A BAD EXPERIENCE
J. Vandekerckhove, H. Demol, M. Puype, L. Martens, R. Van Belleghem
, N. Berdenis, G. Thomas,K. Gevaert (Ghent,Brussels, Belgium)



 

12.45 - 13.05
IDENTIFICATION OF PROTEINS CONTAINING
POSTTRANSLATIONAL MODIFICATIONS (PTMS) OR POINT
MUTATIONS BY MALDI-MS/-PSD
H. E. Meyer, K. Marcus, M. Blüggel, A. Sickmann (Bochum, Germany)



 

13.05 - 14.45
LUNCH(sponsored by Applied Biosystems)



 

A5) Automation
Chairperson: P. James



 

14.45 – 15.05
A SOLUTION FOR RAPID PROGRESS INPROTEOME PROJECTS
B. J. Walsh(Sydney, Australia)



 

15.05 - 15.25
BENEFITS OF FAST PROTEIN IDENTIFICATION FOR 3D-
PROTEOMICS
H. Langen, P. Berndt (Basel, Switzerland)



 

15.25 – 15.45
COMPREHENSIVE ONE STEP PROTEOME ANALYSIS BY THE
MOLECULAR SCANNER:QUANTITATIVE EVALUATION
W. V. Bienvenut, M. Heller, M. Müller, , S. Paesano, V. Converset, R. Gras,
P.-A. Binz, J.-C. Sanchez, R.D. Appel, D. F. Hochstrasser (Geneva, Switzerland)



 

ORAL PARALLEL SESSIONS A
SIGNALING PATHWAYS
Chairperson: R. Zwilling



 

15.50 - 16.05
FUNCTIONAL PROTEOMICS: FROM RECEPTOR TO SIGNAL
CASCADE TO GENE EXPRESSION
J. Godovac-Zimmermann(London, UK)



 

16.05 - 16.20
INVESTIGATING THE MODULAR NATURE OF SIGNALING
PATHWAYS
P. Hornbeck, J. Rush, H. Zhang (Beverly, Massachusetts, USA)



 

16.20 - 16.35
THE NUTS AND BOLTS OF A MINIMALIST PROTEOMIC APPROACH.
APPLICATION TO THE INSULIN TRANSDUCTION PATHWAY IN
THE 3T3-L1 ADIPOCYTE CELL LINE
A. Ducret, A. Kamassah, M. Chevallet, M. Gresser, C. Ramachandran
(Pointe-Claire–Dorval, Québec, Canada)



 

16.35 - 16.50
COFFEE BREAK



 

ONCOLOGY
Chairpersons: G. Auer, J.E. Celis



 

16.50 – 17.05
UNRAVELING TUMOR COMPLEXITY
G. Auer, A. Alaiya, U. Roblick, S. Huwendiek, A. Hagman, B. Franzén,
S. Linder (Stockholm, Sweden)



 

17.05 – 17.20
PROTEOMIC STRATEGIES IN BLADDER CANCER
J. E. Celis(Aarhus, Denmark)



 

17.20 – 17.35
MASS SPECTROSCOPIC ANALYSIS OF GLIAL FIBRILLARY ACIDIC
PROTEIN AND ITS FRAGMENTS IN ASTROCYTOMA AND
OLIGODENDROGLIOMA
T.M. Luider, P. Sillevis Smitt, M. Fountoulakis, J. M. Kros
(Rotterdam, the Netherlands; Basel, Switzerland)



 

17.35 – 17.50
STRATEGIES TO STUDY MECHANISMS OF CHEMORESISTANCE IN
CANCER CELLS IN VITRO
H. Lage, S. Kohl, J. E. Celis, D. Schadendorf, M. Schnölzer, P. Sinha
(Berlin, Heidelberg, Germany; Aarhus, Denmark)



 

17.50 – 18.05
PROTEIN PROFILING OF HUMAN PROSTATE TUMOR MATERIAL:
ANALYSIS OF BENIGN AND MALIGNANT TISSUES
A. Alaiya, M. Oppermann, U. Roblick, V. Daniela M. Hellström, T. Bergman,
S. Linder, L. Egevad, H. Jörnvall, G. Auer(Stockholm, Sweden)



 

ORAL PARALLEL SESSIONS B
PROKARYOTES I
Chairperson: R. A. VanBogelen



 

15.50 – 16.05
PROTEOMICS OF BACTERIAL MEMBRANES
M. P. Molloy, N. Phadke, P. J. Ulintz, J. Maddock, P. C. Andrews
(Ann Arbor, MI, USA)



 

16.05 – 16.20
COMPARATIVE PROTEOME ANALYSIS OF HELICOBACTER PYLORI
P.R. Jungblut, D. Bumann, G. Haas, U. Zimny-Arndt, P. Holland, S. Lamer,
F. Siejak,A. Aebischer, T. F. Meyer (Berlin, Germany)



 

16.20 – 16.35
PROTEOME ANALYSIS DEMONSTRATES COMPLEX REPLICON,
REGULATOR AND LUTEOLIN INTERACTIONS IN SINORHIZOBIUM
MELILOTI
J. J. Weinman, M. A. Djordjevic, H. Chen, J. Higgins, S. Natera, B. G. Rolfe
(Canberra, Australia)



 

16.35 – 16.50
CHARACTERIZATION OF STRESS RESPONSES IN SEROTYPES OF
CHLAMYDIA TRACHOMATIS
A. C. Shaw, P. Roepstorff, A. Holm, G. Christiansen, S. Birkelund
(Aarhus, Odense, Copenhagen, Denmark)



 

16.50 – 17.05
COFFEE BREAK



 

PROKARYOTES II
Chairperson: H. Langen



 

17.05 – 17.20
CELL CYCLE DEPENDENT MEMBRANE PROTEINS OF CAULOBACTER
CRESCENTUS
J. R. Maddock, N. Phadke, C. E. Johnson, M. P. Molloy, M. Hurley, P. J. Ulintz,
P. C. Andrews (Ann Arbor, MI, USA)



 

17.20 – 17.35
ANALYSIS OF THE ESCHERICHIA COLI PROTEOME DURING 
BIOPHARMACEUTICAL PRODUCTION
K. Champion, J. Nishihara, J. Stults (South San Francisco, CA, USA)



 

17.35 – 17.50
PROTEOME ANALYSIS OF CORYNEBACTERIUM GLUTAMICUM
T. Hermann, W. Pfefferle, S. Schaffer, M. Bott, A. Bendt, A. Burkovski
(Köln, Germany)



 

17.50 - 18.05
SYSTEMATIC APPROACH TO THE PROTEOME OF NEISSERIA
MENINGITIDIS TO DISCOVER NEW VACCINE CANDIDATES
R. Rappuoli(Siena, Italy)



 

18.30
SOCIAL DINNER (countryside restaurant)
(sponsored by Proteome Science plc.)



 

WEDNESDAY SEPTEMBER 6th



 

MAIN LECTURE
9.00 - 9.45
GENETICS AND EPIGENETICS
J. Burn(Newcastle, UK)



 

PLENARY SESSION

KNOWLEDGE REPRESENTATION

B1) Imaging and Data Display
Chairperson: P. Lemkin



 

9.45 - 10.05
RAW-IMAGE BASED AUTOMATIC REGISTRATION OF 2D-GEL IMAGES
Z. Smilansky(Tel-Aviv, Israel)



 

10.05 - 10.25
FUTURE TRENDS IN 2-DE COMPUTER ANALYSIS
R.D. Appel, D. Walther, G. Bouchet, S. Voordijk, C. Sontot, P. Palagi,
J.-C. Sanchez, D.F. Hochstrasser(Geneva, Switzerland)



 

10.25 - 10.50
COFFEE BREAK



 

10.50 - 11.10
PATHMAP: A NOVEL TOOL FOR VISUALIZATION OF RNA AND
PROTEIN EXPRESSION PROFILING DATA
J.C. Rogers, G. McMaster, J. Thomas (Ann Arbor, MI, USA)



 

11.10 - 11.30
MAKE THE GEL A RUBBER SKIN–LOOPHOLES OF TIME CONSUMING
IMAGE ANALYSIS
J. Bernhardt, F.-M. Moser, M. Berth, M. Hecker (Greifswald, Germany)



 

B2) Modelling
Chairperson: A. Bairoch



 

11.30 - 11.50
FROM GENOMES TO PROTEIN SPACE
M. C. Peitsch, T. Schwede, A. Diemand, N. Guex(Plan-les-Ouates, Switzerland)



 

11.50 - 12 10
PREDICTIVE PROTEOMICS UTILISING FOUR-DIMENSIONAL
PSEUDO-ARRAYS
S. J. Cordwell(Sydney, Australia)



 

B3) Data and Knowledge Bases
Chairperson: R.D. Appel



 

12.10 - 12.30
BRIDGING LABORATORY AND REFERENCE DATA: AN OPEN
ARCHITECTURE BIOINFORMATICS DATABASE SYSTEM FOR
PROTEOMICS
A. F. Jacobson(Hercules, CA, USA)



 

12.30 - 12.50
PROTEIN DATA AND KNOWLEDGE BASES

J.Garrels (Beverly, MA, USA)



 

12.50 - 14.30
LUNCH(sponsored by Bio-Rad)



 

14.30 - 14.50
PRIME: A MANAGEMENT AND DATA MINING SYSTEM
IMPLEMENTED FOR E. COLI MEMBRANE PROTEIN ANALYSIS
P. Ulintz, M. Bly, M. Hurley, H. Haynes, M. Molloy, P. C. Andrews
(Ann Arbor, MI, USA)



 

14.50 - 15.10
NEW DEVELOPMENTS CONCERNING THE SWISS-PROT PROTEIN
SEQUENCE DATABASE: THE HPI AND HAMAP PROJECTS
A. Bairoch(Geneva, Switzerland)



 

15.10 - 15.30
A NEW CURATED RELATIONAL DATABASE(GlycoDB) OF
GLYCOPROTEIN GLYCAN STRUCTURES AND THEIR BIOLOGICAL
SOURCES
C. A. Cooper, M. J. Harrison, M. R. Wilkins, N. H. Packer(Sydney, Australia)



 

ORAL PARALLEL SESSIONS A
EUKARYOTIC CELLS AND TISSUES I
Chairperson: L. Huber



 

15.45 – 16.00
CHARACTERISATION OF THE MAMMALIAN GOLGI COMPLEX BY
PROTEIN MASS SPECTROMETRY
J. S. Choudhary, M. A. Ward, H. Byers, L. Yu, W. P. Blackstock, A. Rowley
(Stevenage, UK)



 

16.00 – 16.15
MAPPING AND IDENTIFICATION OF PROTEIN-PROTEIN
INTERACTIONS BY TWO DIMENSIONAL FAR-WESTERN
IMMUNOBLOTTING
C. Pasquali, F. Vilbois, M.-L. Curchod, R.H. van Huijsduijnen, F. Arigoni
(Geneva, Lausanne, Switzerland)



 

16.15 – 16.30
SELECTIVE PERTURBATION AND MODIFIED TURNOVER OF A
RESTRICTED SUBSET OF MITOCHONDRIAL INNER MEMBRANE
PROTEINS IN THE SUBUNIT C STORING NEURONAL CEROID
LIOPOFUSCINOSES
T.W. Jordan, S.M. Hughes, P. Moroni-Rawson, D.N. Palmer, R.D. Jolly
(Wellington, Canterbury, Palmerston North, New Zealand)



 

16.30 – 16.45
MASS SPECTROMETRIC PROTEOME ANALYSIS OF GERM-LINE 
MATURATURATION DEPENDENT PROTEIN EXPRESSION IN
C. ELEGANS
M. Bantscheff, B. Ringel, R. Schnabel, H.-J. Thiesen, M.O. Glocker
(Rostock, Braunschweig, Germany)



 

16.45 - 17.00
COFFEE BREAK



 

EUKARYOTIC CELLS AND TISSUES II
Chairperson: R. Banks



 

17.00 – 17.15
TIME, SPACE AND THE EVERCHANGING PROTEOME OF THE
HUMAN LENS
D. L. Garland, C. M. Colvis, J. Jimenez-Asensio, U. Mura
(Bethesda, MD. USA; Pisa, Italy)



 

17.15 – 17.30
APOPROTEINS PURIFIED WITH A COMBINED CHROMOTOGRAPHY
AND ELECTROPHORETIC STRATEGY, MAINTAIN THEIR ANTI-
PERMEABILITY ACTIVITY WITH ISOLATED GLOMERULI IN VITRO
G. Candiano, L. Musante, C. Zennaro, M. Carraro, M. Artero, R. Gusmano,
F. Ginevri, G.M. Ghiggeri (Genoa, Trieste, Italy)



 

17.30 - 17.45
POST-TRANSLATIONAL MODIFICATION AND HEART DISEASE: A
SPECTRUM OF CHANGE FROM PRECONDITIONING TO ISCHEMIC-
INDUCED HEART FAILURE
D.K. Arrell, I. Neverova, E. Marbn, J. E. Van Eyk
(Kingston, ON, Canada; Baltimore, MD, U.S.A)



 

17.45 - 18.00
A NEW SERUM MARKER FOR THE EARLY DIAGNOSIS OF STROKE
C. G. Zimmermann, J.-C. Sanchez, M. Gex-Fabry, M. Ferreira, L. Tonella,
J. Le Floch-Rohr, D.F. Hochstrasser (Geneva, Switzerland)



 

ORAL PARALLEL SESSIONS B
PLANTS
Chairperson: A. Görg



 

15.45 - 16.00
RECENT DEVELOPMENTS AND NEW PROSPECTS IN CRUCIFERAE
PROTEOMICS
K. Marquès, B. Sarazin, L. Chané-Favre, H. Thiellement(Geneva, Switzerland)



 

16.00 – 16.15
PROTEOMICS OF THE CHLOROPLAST:SYSTEMATIC
IDENTIFICATION AND TARGETING ANALYSIS OF THYLAKOID
PROTEINS IN CHLOROPLASTS OF PISUM SATIVUM AND
ARABIDOPSIS THALIANA
J.-B. Peltier, J. Yttersberg, G. Friso, D. E. Kalume, F. Nilsson, I. Adamska,
P. Roepstorff, K. J. van Wijk (Stockholm, Mölndal, Sweden; Odense, Denmark)



 

16.15 – 16.30
COFFEE ROASTING: DISSECTION OF A KEY STEP IN COFFEE
PROCESSING BY 2DPAGE
P. Montavon, E. Duruz (Lausanne, Switzerland)



 

16.30 - 16.45
PROTEOME ANALYSIS OF THE SYMBIOTIC INTERACTION BETWEEN
THE MODEL ORGANISM SINORHIZOBIUM MELILOTI AND THE
LEGUME MELILOTUS ALBA
S. H. A. Natera, N. Guerreiro, B. G. Rolfe, M. A. Djordjevic(Canberra, Australia)



 

16.45 - 17.00
THE PROTEOMES OF PHOTOSYNTHETIC ORGANS, ORGANELLES
AND MEMBRANES
L. Porubleva, Y. Wang, A. Fu, D. Oliver, S. Rodermel, P.R. Chitnis(Ames, IA, USA)



 

17.00 – 17.15
COFFEE BREAK



 

RAT AND MOUSE
Chairperson: S. Steiner



 

17.15 - 17.30
PROTEOMIC ANALYSIS OF ATROPHYING RAT SKELETAL MUSCLE
R. J. Isfort(Cincinnati, OH, USA)



 

17.30 - 17.45
PROTEOMICS OF RAT SERUM: INFLAMMATORY PATTERN IN
STROKE-PRONE SPONTANEOUSLY HYPERTENSIVE RATS (SHR-SP)
L. Sironi, I. Miller, I. Eberini, A. M. Calvio, M. Gemeiner, C. R. Sirtori,
E. Tremoli, E. Gianazza (Milano, Italy; Vienna, Austria)



 

18.00- 20.00
WINE AND CHEESE TASTING-VISIT TO POSTERS
(sponsored by GeneBio S.A.)



 

THURSDAY SEPTEMBER 7th



 

PLENARY SESSION 

KNOWLEDGE REPRESENTATION

B4) Data Analysis and Interpretation
Chairperson: S. Patterson



 

9.00 - 9.20
HIGH THROUGHPUT, PROBABILITY BASED PROTEIN
IDENTIFICATION
D. N. Perkins, D. J. C. Pappin, D. M. Creasy, J. S. Cottrell(London, UK)



 

9.20 - 9.40
NEW LEARNING METHOD TO IMPROVING PROTEIN
IDENTIFICATION FROM PEPTIDE MASS FINGERPRINTING
R. Gras, E. Gasteiger, B. Chopard, M. Mueller, R. D. Appel (Geneva, Switzerland)



 

9.40 - 10.00
QUANTITATION IN PROTEOMICS: HOW TO SWIM IN NUMBERS
WITHOUT DROWNING
L. Anderson, J.-P. Hofmann, J. Taylor, R. Esquer-Blasco, M. Rohrs,
D. Forster, S. Steiner, T. Myers (Rockville, MD, USA)



 

PLENARY SESSION 

EPIGENESIS AND COMPLEXITY

C1) Molecular Networks and Functional Studies
Chairperson: F. Lottspeich



 

10.00 - 10.20
PROTEOLYSIS IN BIOLOGICAL SYSTEMS
R. Zwilling(Heidelberg, Germany)



 

10.20 - 10.40
HOW TO ANALYSE PROTEOMES OF CELLULAR ORGANELLES
L. A. Huber(Wien, Austria)



 

10.40 - 11.00
COFFEE BREAK



 

11.00 – 11.20
FUNCTIONAL PROTEOMICS HIGHLIGHTS A NOVEL MECHANISM IN
MEMBRANE TRAFFICKING
S. Uttenweiler-Joseph, S. Christoforidis, M. Zerial, M. Wilm(Heidelberg, Germany)



 

11.20 - 11.40
SCREENING FOR BINDERS OF MEMBRANE RECEPTORS USING
SURFACE PLASMON RESONANCE
M.A. Cooper, J.W. Thuring, P.T. Hawkins, L.R. Srephens, A.B. Holmes
(Cambridge, UK)



 

11.40 - 12.00
GENETIC DETERMINATION OF POST-TRANSLATIONAL
MODIFICATIONS
J. Klose, C. Nock (Berlin, Germany; Herts, UK)



 

12.00 - 12.20
CONFLICTS AND COMPLIMENTATION IN THE VIEWS OBTAINED
FROM EXPRESSION PROFILING, GENETICS AND BIOCHEMICAL
ANALYSIS
R. A. VanBogelen, E. E. Schiller (Ann Arbor, MI, USA)



 

12.20 - 12.40
COMBINING GENOMICS AND PROTEOMICS TO ANALYZE
CONSTITUTIVE AND CELL LINE SPECIFIC PROTEIN EXPRESSION
IN HUMAN CELL LINES
P. Berndt, H. Langen (Basel, Switzerland)



 

12.40- 14.30
LUNCH(sponsored by GeneProt Inc.)



 

14.30 - 14.50
TWO-DIMENSIONAL GEL ELECTROPHORESIS AND ANTIBODY

PHAGE TECHNOLOGY IN ANGIOGENESIS RESEARCH

D. Neri (Zurich, Switzerland)



 

14.50 - 15.10
PEPTIDE LIBRARIES AS SOURCE OF SYNTHETIC LIGANDS 
L. Bracci, L. Lozzi, P. Neri (Siena, Italy)



 

15.10 - 15.30
THE RATIONAL DEVELOPMENT OF ANTI-HIV PROTEINS ACTIVE
AT LOW PICOMOLAR CONCENTRATIONS: A CASE STUDY FOR
APPLIED PROTEOMICS
H. Gaertner, J. Wilken, D. Thompson, L. Picard, S. B. Kent, O. Hartley,
K. Rose, R. Offord(San Francisco, CA, USA;Paris, France; Geneva, Switzerland)



 

CLOSING MAIN LECTURE



 

15.30 – 16.15
MODELLING NATURE COMPLEXITY
H. Atlan(France)



 

16.15 - 16.30
CONCLUDING REMARKS
V.Pallini, L. Bini, J.-C. Sanchez, D.F. Hochstrasser