New training tracks for 2018:

During 2018 2 “training tracks” will be activated. The first line is a set of three courses focused on using “R” for the manipulation and analysis of biological data, the second line is about Next Generation Sequencing (NGS) data analysis.

“R”-focused training track:

3 courses (3 on-line weeks + 2/3 live dayseach)

1) R4BM – R for biological data manipulation
Introductory  course (no previous experience required) on data manipulation focused on life science data (biological data, gene expression, clinical data and similar). The course is highly practical and designed for life science professional (biologists, technicians, clinicians, researchers) with no previous bioinformatics experience. Participants should have the normal skills of computer usage, such as creating and navigating through files and folders, using spreadsheets and word processors; the course will introduce them to the use of the scripting language “R” with “Rstudio”, as long as a number of specific R packages to perform data cleaning, wrangling and reshaping. Basics of data visualization with “ggplot2” and biological gene list annotation will complete the curriculum. Real working life cases will be used as practical examples throughout the lessons.
This course will be useful for all those are in need of the basic semantics of data science because: 1) they are looking for an efficient introduction to R in order to acquire knowledge useful for more advanced R courses; 2) they need to communicate with their fellow bioinformaticians more efficiently; 3) they want to take the road of “data enlightenment” and start a shift in career focusing on data analysis.

2) FunGR – Functional genomics with R

Introductory course (no previous experience required) on methods in functional interpretation of genomics data. The course is highly practical and designed for life science professional (biologists, technicians, clinicians, researchers) and previous bioinformatics experience is not required (but a basic understanding of the R system will help).  Participants should have the normal skills of computer usage, such as creating and navigating through files and folders, using spreadsheets and word processors and be familiar with the most common genomics techniques such as RTqPCR, microarrays, sequencing, at least from an experimental design perspective. The course will introduce them to the use of the specific and advanced methods to extract functional and biological knowledge from omics data. Ranking and enrichment methods, gene ontologies, cross annotations, GSEA and/or WGCNA, interaction network and systems biology methods. Specific R packages will be used and a basic introduction to R usage will be also given for those who need it. Other software such as Cytoscape and its plugins will be used beside R. Real working life cases will be used as practical examples throughout the lessons.
This course will be useful for all researchers or life science professionals willing to exploit and better understand their biological data, as well as in need to communicate with their fellow bioinformaticians more efficiently.

3) R4BS – R for biomedical statistics

Intermediate course (basic knowledge of R is required) on data analysis with a special focus on statistics for life sciences. The course is highly practical and designed for life science professional (biologists, technicians, clinicians, researchers) with little analytical experience: participants should be at ease with the basics of using the scripting software/language R beside having all normal skills of computer usage, such as creating and navigating through files and folders, using spreadsheets and word processors (to those not familiar with R we suggest to tale our basic R4BM course first). This course will introduce them to the theory and practice of basic to advanced statistical methods used for biomedical data. Distributions, descriptive statistics, hypothesis testing; linear and nonlinear model fitting, correlation; machine learning basics with discriminatory analysis, PCA and clustering; ROC and survival curves, digital biomarkers, Bayesian inference and simulation methods. The statistical scripting software “R” with “Rstudio”, along with a number of specific R packages to perform data analysis will be used.
This course will be useful for all those who want 1) to be more productive and independent with their data analyses; 2) to deeper explore the structure of data, data types, or simply 3) being able to communicate with their fellow biostatistician more efficiently.

“NGS”-focused training track:

2 courses (3 on-line weeks + 2/3 live dayseach)

1) bNGS – Basic NGS & RNAseq.

Basic course of Next Generation Sequencing and mRNAseq procedures. The course is both made of theory and practice: it is designed for life science professional (biologists, technicians, clinicians, researchers) without particular bioinformatics experience. Besides normal skills of computer usage, such as creating and navigating through files and folders and using spreadsheets, participants should be familiar with the biological methods used for gene expression such as RTqPCR and microarrays. The course will introduce them to the basic concepts and caveats of next generation sequencing (how it works, coverage, NGS experimental design) and to the underlying statistics. It will then spend the rest of the time analysing a detailed RNAseq protocol through all its steps: base calling, quality control, mapping, counting, quantification, annotation and differential expression at the gene level. Some analytical procedures will be performed using the Galaxy platform (either the public online instance, or our private servers), while a few methods will be experimented live using the statistical scripting software “R” with “Rstudio”, as long as a number of other specific open source software (no previous experience with R or Linux-bash is strictly required, but it would obviously help).
Sequencing de-facto replaced and surpassed microarrays for gene expression applications. This course will be useful for researchers willing to be introduced to simple yet rigorous gene expression analyses by NGS.  The ideal participants 1) are looking for a thorough introduction to RNAseq with concepts that can be broadly applied also to other NGS applications (DNAseq, ChIPseq) and 2) they need to work side by side with bioinformaticians delivering NGS results.

2) xNGS – Exome sequencing for clinical research

Introductory course on Exome sequencing and NGS in the clinic. As all our courses, xNGS is a practical course designed for life science professional with a special emphasis on clinicians and biologists doing clinical research. To follow the course participants needs to have common skills of computer usage, such as creating and navigating through files and folders and using spreadsheets, and they should be familiar with the basics of molecular biology of mutations and the underlying statistics. The aim of the course is to practically learn how to discover clinically significant variants using exome sequencing data. From raw files to mapping, variant calling and browsing with genome browsers and dedicated software tools. The main steps of the classic analytical pipeline will be addressed: quality checks, filtering, mapping, variant calling, annotation, ranking.

This course is aimed at biologists, physicians, clinical and life science professionals without a background in data analysis working or 1) willing to directly work with exome sequencing, DNAseq gene panels and 2) willing to learn how to discover new variants, annotate existing ones, filter and compare family genomes.

 

Come Iscriversi (how to register)

Procedura di pre-iscrizione

E’ possibile pre-iscriversi non appena i corsi verrano annunciati, registrandosi al sito (se non lo si è già fatto in precedenza) fornendo una user-id, una password e una email. Puoi registrarti cliccando sull’icona in alto a destra in ogni pagina o direttamente a questo link.  Successivamente alla registrazione cerca la pagina del corso a cui vuoi iscrivervi e clicca sul tasto rosso “BUY THIS COURSE”. A questo punto NON viene eseguita alcuna transazione, ma ci viene soltanto inviato un ordine che dovrai successivamente confermare (vedi oltre).

Pagamento e finalizzazione dell’iscrizione

Una volta ricevuto il tuo ordine, se il numero minimo di iscritti viene raggiunto, sarai ricontattato direttamente via email:

  • se vi sono posti disponibili, e se il numero minimo di iscritti è stato raggiunto, ti manderemo gli estremi per il pagamento (IBAN bancario) che dovrai effettuare per finalizzare l’iscrizione: solo dopo la ricezione del tuo pagamento assieme ad una tua email di conferma la tua iscrizione verrà finalizzata e confermata con una nostra comunicazione finale.
  • se non vi sono posti disponibili (la capienza massima di ogni corso è 25 persone) ti inseriremo – se lo vorrai – nella lista d’attesa per una successiva edizione dello stesso corso. Potrai così mantenere la priorità acquisita

Ad oggi purtroppo l’unico mezzo di pagamento è il bonifico bancario, in futuro sarà possibile pagare direttamente dal sito con carta di credito. Se hai bisogno di assistenza per l’iscrizione puoi contattarci via email.

Cosa comprende il costo di iscrizione

  • L’accesso alla piattaforma on-line due settimane prima del corso e due settimane dopo, con tutti i materiali di studio preparatori (da subito) e le slides del corso live (dopo l’esecuzione dello stesso).
  • Due giorni di corso pratico (o tre, a seconda del corso) in aula con bioinformatici e bioanalisti professionisti.
  • Accesso web/internet nell’aula del corso durante i due (o tre) giorni del corso.
  • Coffee breaks e light lunch per i due (o tre) giorni del corso.
  • Piccola cancelleria.

Cosa NON comprende il costo di iscrizione

  • PC o terminali per le sessioni pratiche: TUTTI I PARTECIPANTI DEVONO DOTARSI DI LAPTOP/PC PORTATILE PROPRIO per poter partecipare alle sessioni pratiche in aula.
  • Il pernottamento e il trasporto per chi proviene da fuori Milano e deve pernottare durante i giorni del corso è completamente a carico dei partecipanti. Una lista di possibili alloggi verrà fornita a titolo puramente indicativo.
  • L’eventuale cena dei due giorni di corso in aula è a carico dei partecipanti. Occasionalmente, senza preavviso e a seconda della disponibilità dei docenti, potrà essere organizzata la cena/aperitivo del sabato sera assieme ai docenti stessi, ma sarà comunque facoltativo e a carico dei partecipanti.