A.A. 2014-2015
CORSO INTEGRATO DI INFORMATICA E
BIOINFORMATICAper il CLT in BIOLOGIA MOLECOLAREScuola di Scienze, Università di Padova
Docenti: Proff. Roberto di Pietro (Informatica)
Stefania Bortoluzzi (Bioinformatica)
SVOLGIMENTO DEL CORSO INTEGRATO E MODALITÀ D’ESAME
• II semestre del I anno
• Impegno didattico di 5 crediti:
• 24 ore di lezione frontale
• 32 ore di esercitazioni al computer
Così suddivise:
• Valutazione finale (Idoneità): in base all’esito delle esercitazioni e di una verifica scritta individuale.
Insegnamento Lezione Esercitazione
INFORMATICA 16 16
BIOINFORMATICA 8 16
WEB SITE DEDICATO AL CORSOhttp://compgen.bio.unipd.it/~stefania/Didattica/AA2014-2015/
ORGANIZZAZIONE DEL CORSO INTEGRATO
ORARIO E AULE ONLINE
TESTI e materiali CONSIGLIATIINFORMATICA•Colussi, File', Rossi, Informatica di base, Libreria progetto, 2003.•J. Glenn Brookshear (2006) Informatica: una panoramica generale. Pearson/Addison Wesley. (approfondimenti) •Python: http://www.python.it/doc/Howtothink/HowToThink_ITA.pdf
BIOINFORMATICA•Materiale lezioni•Risorse e tutorial online•Per approfondimento facoltativo: Fondamenti di Bioinformatica, Krane e Raymer, Pearson, 2007
“Researchers need to be obliged to document and manage their data with as much professionalism as they devote to their experiments.”
THE BIG DATA ERA
Nature journal Issue of 4 2008
Importance of data:• Retrieval• Integration• Analysis
An at least basic knowledge of bioinformatic methods in unavoidable also for experimental researchers
Bioinformaticsfrom basic methods for managing biosequences to systems biology models
NIH BIG DATA to Knowledge (BD2K)With advances in technologies,
investigators are increasingly
generating and using large,
complex, and diverse datasets.
Consequently, the biomedical
research enterprise is
increasingly becoming data-
intensive and data-driven.
However, the ability of
researchers to locate, analyze,
and use Big Data (and more
generally all biomedical and
behavioral data) is often limited
for reasons related to access to
relevant software and tools,
expertise, and other factors.
D2K aims to develop the new
approaches, standards,
methods, tools, software, and
competencies that will enhance
the use of biomedical Big Data
by supporting research,
implementation, and training in
data science and other relevant
fields.
Importance of Bioinformatics
Deep sequencing data analysis
DATABASES AND DATA RETRIEVALBiosequences and Gene-related info
WORKING WITH BIOSEQUENCESAlignments and similarity search
gene details
An
nota
tion
Tra
cks
officialsequence
comparisons
SNPs
NAVIGATING GENOMESBy Genome Browsers
EXAMPLES FROM MORE ADVANCED BIOINFORMATICS
Gene expression and RNA-seq data analysis
Opportunities and Challenges OPPORTUNITIES:
• estimate the odds of your future children being born with something like Down syndrome• secure paternity test• customized cancer-fighting drugs• personalized medicine
Opportunities and Challenges
“When your bank account or credit card is compromised, the situation is painful but recoverable. You can close the account, wipe the slate clean and start over. You cannot change or revoke your DNA once it’s leaked,” says Gene Tsudik – UCI – GenoDroid project.
OPPORTUNITIES:• estimate the odds of your future children being born with a genetic disease• secure paternity test• customized cancer-fighting drugs• personalized medicine
CHALLENGES:• do you have something more “private” than your DNA?• consumers fear losing insurance coverage if results are shared, companies don’t want to reveal proprietary information about customized treatments
BioMol- Informatica e Bioinformatica - Modulo di Informatica
Roberto Di Pietro
Contatto: [email protected]: Per eventuali ricevimenti contattatemi via email; indicativamente mercoledì pomeriggio, in studio, 18.30 – fine
Il modulo si propone di fornire un’introduzione* su:- architettura degli elaboratori;- circuiti logici; - rappresentazione dell'informazione; - sistemi operativi;- reti di calcolatori;- Data Base, sicurezza --- cenni- programmazione (python).
Il modulo di Informatica si suddivide in lezioni di teoria (16 ore) e lezioni pratiche in lab. (16 ore).
*il programma di dettaglio verrà discusso durante la prima lezione e messo on-line.