Category: news

Our group has attended the 31st Annual Intelligent Systems For Molecular Biology (ISMB) and the 22nd Annual European Conference on Computational Biology (ECCB) conference. It was an incredibly successful event!

🚀 Our Tutorial was a triumph!

We are elated by the overwhelming response to our tutorial “How to make reproducible, portable and reusable bioinformatics software using software containerization“. The high demand showcased the significance of this topic in the software development landscape.

🎤 Sysbiobig on the Stage!

It was a privilege and an honor to present our work among esteemed professionals and researchers through 4 oral presentations and 8 poster contributions

• Oral communication & Poster contribution “Modeling the tumor microenvironment with a hybrid Multi-Agent Spatio-Temporal model fed with sequencing data” (Mikele Milia, Giulia Cesaro, Giacomo Baruzzo, Piegiorgio Alotto, Noel Filipe da Cunha Carvalho de Miranda, Zlatko Trajanoski, Francesca Finotello, Barbara Di Camillo)
• Oral communication “CClens: a cellular communication workflow for large-scale single-cell RNA sequencing data” (Giulia Cesaro, Giacomo Baruzzo, Barbara Di Camillo)
• Oral communication & Poster contribution “scSeqComm: a statistical and network-based framework to infer inter- and intra-cellular communication from single-cell RNA sequencing data” (Giacomo Baruzzo, Giulia Cesaro, Barbara Di Camillo)
• Oral communication & Poster contribution “Comprehensive benchmarking of differential abundance methods in microbiome data” (Marco Cappellato, Giacomo Baruzzo, Barbara Di Camillo)
• Oral communication “Interactive and effective visualization framework for interpreting and exploring cellular communication data” (Giulia Cesaro, Giacomo Baruzzo, Barbara Di Camillo)
• Poster contribution: “Bactlife – A Dash GUI to simulate bacterial communities’ evolution via agent-based modeling” (Massimo Bellato, Marco Cappellato, Sara Rebecca, Andrea Calzavara, Alessandro Lucchiari, Niccolò Venturini Degli Espositi, Barbara Di Camillo)
• Poster contribution “Towards automatic ACMG evidence identification for variant interpretation” (Francesca Longhin, Alessandro Guazzo, Enrico Longato, Diego Boscarino, Dino Paladin, Nicola Ferro, Barbara Di Camillo)
• Poster contribution “Comprehensive review of tumoral sample simulators: building a realistic gold standard for somatic variant calling validation” (Francesca Longhin, Enidia Hazizaj, Giacomo Baruzzo, Barbara Di Camillo)
• Poster contribution “mopo16Sweb: A webapp for multi-objective optimization of 16S rRNA primers sequences on the cloud” (Mikele Milia, Nicola Ferro, Barbara Di Camillo, Giacomo Baruzzo)
• Poster contribution: “Shedding light on cellular communication analysis: the present and the future” (Giulia Cesaro, James S. Nagai, Alice Chiodi, Vanessa Klöker, Nicolò Gnoato, Ettore Mosca, Ivan Costa, Enrica Calura, Barbara Di Camillo, Giacomo Baruzzo)

We’re excited to inform you that our newest LinkedIn account has been officially opened.

Be sure to follow us on LinkedIn too, to stay updated on our latest projects and keep in touch with us even further.

Let’s connect and innovate together!

The 18th Computational Intelligence Methods for Bioinformatics and Biostatistics Conference CIBB 2023 will take place in Padova (Italy) on 6-8 September 2023.

Call for papers

Submit your short paper (4-6 pages) describing your original contributions in the fields of bioinformatics, biostatistics, systems and synthetic biology, and medical informatics.

Deadline: 30 April 2023

For submission guidelines and further information have a look at the Conference website: https://cibb2023.dei.unipd.it/call-for-paper.html

Check the special sessions

In addition to the main track, the conference will provide for a number of special sessions focused on specific, cutting-edge topics: you can find all the details at https://cibb2023.dei.unipd.it/call-for-special.html.

making reproducible, portable and reusable bioinformatics software&pipelines 🧬💻

Reproducibility is a major principle underpinning the scientific method, and it is of pivotal importance for bioinformatics studies. Bioinformatics analyses are typically the results of pipelines of software packages, each one having multiple running options and frequent updates that often changes their default behaviors. Moreover, bioinformatics softwares extensively rely on external libraries/packages, thus limiting the portability and reusability of the software, requiring to properly install and configur a large amount of dependencies, and building/compiling of the application on different target systems. Containers are the solutions to most of the above issues.

🤝The workshop is organized in collaboration with RSG Italy (italian regional student group of ISCB).

📖 PREREQUISITES: Basic knowledge of Linux-based operating systems (e.g. Ubuntu) and Linux terminals is required.

🗓 WHEN: the 21th February 2023 from 2:30 to 6:00 PM
📍WHERE: online ZOOM
📢 REGISTRATION: register now on Eventbrite

Data science and artificial intelligence for supporting the care and cure of amyotrophic lateral sclerosis and multiple sclerosis patients

BRAINTEASER is a data science project that seeks to exploit the value of large clinical datasets integrated with personal and environmental data collected through low-cost sensors, to develop AI-based clinical software and mobile apps to support patients with amyotrophic lateral sclerosis and multiple sclerosis and their clinicians.

The meeting is an important opportunity to share with a wider audience the first results achieved by the project through a multidisciplinary approach implemented during the last 2 years, to discuss the most relevant issues of the models and technology put in place, highlighting future opportunities and challenges.

The workshop will also serve as a place for reflection on the importance of transformative research, with a view to identifying the opportunities that arise from the National Plan for Recovery and Resilience and the related strategic lines of use of the funds envisaged by the Next Generation EU Programme.

When?

BRAINTEASER has planned the mid-term workshop on the 28th February 2023 from 09:30 to 12:00 CET.

How to attend?

Do not miss the opportunity to attend this mid-term workshop.

The event, which can be also attended online, will be held at the prestigious venue of the Botanical Garden of the University of Padua. You can use the following links:

• to join the event online
• to join the event in presence

Full programme

The BRAINTEASER mid-term workshop full programme can be accessed here.