Bioinformatics

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|| Semaine du 5 Avril 2010|| 38:30 h ||
|| CNSTN || salle polyvalente ||
= Structural Bioinformatics =
Structural bioinformatics is the branch of bioinformatics which is related to the analysis and prediction of the three-dimensional structure of biological macromolecules such as proteins, RNA, and DNA. It deals with generalizations about macromolecular 3D structure such as comparisons of overall folds and local motifs, principles of molecular folding, evolution, and binding interactions, and structure/function relationships, working both from experimentally solved structures and from computational models. The term structural has the same meaning as in structural biology, and structural bioinformatics can be seen as computational structural biology [[http://en.wikipedia.org/wiki/Structural_bioinformatics| (wikipedia)]].

== Institut ==
''' National Center of Nuclear sciences and Technologies ([[http://www.cnstn.rnrt.tn/| CNSTN]]) ''':

''' Classroom ''': Conference classroom

''' Level ''': Master 1 of Industrial Development of Health Products - Higher Institute of Biotechnology - Sidi Thabet. [[http://www.isbst.rnu.tn/|ISBST]]

''' Level ''': License 3 of Animal Biotechnology - Higher Institute of Biotechnology - Béja. [[http://www.isbb.rnu.tn/|ISBB]]
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== Organisers ==
''' [[http://kmezhoud.blogspot.com/| Karim Mezhoud]] ''' - email: kmezhoud(at)mnhn(dot)fr
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''' Wahid Mèjri ''' - email: wahid.mejri(at)cnstn(dot)rnrt(dot)tn
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=== Planning ===
Lundi (9-17h): introduction générale sur Ubuntu et le logiciel libre - install party
''' [[Rafik| Rafik Ouerchefani]] ''' - email: rafik(at)ubuntu(dot)com
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Mardi (8-12h): Manipulation de fichiers contenants des données biologiques sous shell === Planning of the workshop ===
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Mercredi (8-12h): apprendre les différentes façons d'installer un programme sous Ubuntu ||<rowbgcolor="#d9bb7a" align="center"> Week-Days ||<:45%> Morning (9-12H) ||<:45%> Afternoon (14-17H) ||
||<tablestyle="width: 50%" rowbgcolor="#d9bb7a" align="center" > Monday ||<:> Demonstration on the useful of the structural Bioinformatic in the pharmaceutical field -Importance of the Open source in research area ||<:> Install Party of Ubuntu and exploration ||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a" align="center" > Tuesday ||<:> Basics of shell commands and databases ||<:> Compiling a program or library ||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a" align="center" > Wednesday ||<:> Sequences alignment concept and database search ||<:> Protein structure prediction and feature ||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a" align="center" > Thursday ||<:> Regular expression and data mining ||<:> Interactomics & Pathwayomic ||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a" align="center" > Friday ||<:> Docking: concept and methods ||<:> molecular target search for Drugs ||
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Jeudi (8-12h): Comparaison et alignement de séquences de protéines/ADN === Album of the workgroups ===
[[http://picasaweb.google.fr/kmezhoud|Bioubuntu]]
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Samedi (10-13h): Prédiction des structures tridimensionnelles en se basant sur l'homologie des séquences dans les bases de données PDB. === Documents ===
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La semaine qui suit: Interactomique et docking (en cours) [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=synopsis.png|Synopsis]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=introduction.pdf|Introduction]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=install-party.pdf|Install Party]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=Shell-Regex.pdf|Shell-Regex]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=shellforBiology.pdf|ShellforBiology]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=alignements-concepts.pdf|Alignement Concept]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=structure-3D-prediction.pdf|Structure Prediction]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=Intercatomics.pdf|Interactomics]] [[https://wiki.ubuntu.com/kmezhoud/Bioinformatics?action=AttachFile&do=get&target=docking.pdf|Docking]]
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=== Conferances ===
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Conférence || Animateur || Confirmation Animateur||Besoins|| Confirmation du Materiels|| Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Introduction à la Bioinformatique || karim Mezhoud || ok || vidéo projecteur|| ok || Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> GNU/Linux et le logiciel libre || karim Mezhoud || ok || vidéo projecteur|| ok || Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Ubuntu et sa communauté || karim Mezhoud || ok || vidéo projecteur|| ok || Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Utilité d'Ubuntu pour les Biologistes || karim Mezhoud || ok || vidéo projecteur|| ok || Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Modélisation des interactions Protéines-ADN || Rafik Ouerchfeni || en cours || vidéo projecteur|| ok || Commentaires||

=== Ateliers ===
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Atelier || Animateur || Confirmation Animateur||Besoins|| Confirmation du Materiels|| Commentaires||
||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> installation d'ubuntu || karim Mezhoud || ok || 11 PC|| OK || La salle polyvalente du CNSTN nous met à notre disposition 11 PC pour l'installation d'ubuntu pour les participants||

||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Manipulation de fichier sous shell || karim Mezhoud || ok || 11 PC|| OK || usage de commande de base sous shell pour extraire des informations biologiques contenues dans les bases de données||

||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> installation de programme manuellement sous Ubuntu || karim Mezhoud || ok || 11 PC|| OK || dans cette partie des programmes installés sont spécifiques pour la manipulation et visualisation des protéines||

||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Interactomique des proétines || karim Mezhoud || ok || 11 PC|| OK || dans cette partie des programmes installés sont spécifiques pour la manipulation et la visualisation des interactions entre protéines||

||<tablestyle="width: 100%" rowbgcolor="#d9bb7a"> Prédiction des cibles moléculaires des produits pharmaceutiques || karim Mezhoud || ok || 11 PC|| OK || docking et recherche des cibles moléculaires des médicaments ||

== Équipes ==
L'quipe est constituée de:
Karim Mezhoud: organisateur de la formation Ubuntu pour les biologistes

Rafik Ouerchfeni: participe à toute la formation (installation Bioinformatique)

Wahid Mèjri: participe à toute la formation (logistique et installation)
=== Visitors ===

Structural Bioinformatics

Structural bioinformatics is the branch of bioinformatics which is related to the analysis and prediction of the three-dimensional structure of biological macromolecules such as proteins, RNA, and DNA. It deals with generalizations about macromolecular 3D structure such as comparisons of overall folds and local motifs, principles of molecular folding, evolution, and binding interactions, and structure/function relationships, working both from experimentally solved structures and from computational models. The term structural has the same meaning as in structural biology, and structural bioinformatics can be seen as computational structural biology (wikipedia).

Institut

National Center of Nuclear sciences and Technologies (CNSTN) :

Classroom : Conference classroom

Level : Master 1 of Industrial Development of Health Products - Higher Institute of Biotechnology - Sidi Thabet. ISBST

Level : License 3 of Animal Biotechnology - Higher Institute of Biotechnology - Béja. ISBB

Organisers

Karim Mezhoud - email: kmezhoud(at)mnhn(dot)fr

Wahid Mèjri - email: wahid.mejri(at)cnstn(dot)rnrt(dot)tn

Rafik Ouerchefani - email: rafik(at)ubuntu(dot)com

Planning of the workshop

Week-Days

Morning (9-12H)

Afternoon (14-17H)

Monday

Demonstration on the useful of the structural Bioinformatic in the pharmaceutical field -Importance of the Open source in research area

Install Party of Ubuntu and exploration

Tuesday

Basics of shell commands and databases

Compiling a program or library

Wednesday

Sequences alignment concept and database search

Protein structure prediction and feature

Thursday

Regular expression and data mining

Interactomics & Pathwayomic

Friday

Docking: concept and methods

molecular target search for Drugs

Album of the workgroups

Bioubuntu

Documents

Synopsis Introduction Install Party Shell-Regex ShellforBiology Alignement Concept Structure Prediction Interactomics Docking

Visitors

kmezhoud/Bioinformatics (last edited 2012-12-22 12:08:11 by kmezhoud)