This is a community initiative brought to you by Asia-Pacific Bioinformatics Network (APBioNET). It aims to provide an online avenue to showcase bioinformatics related talks, tutorials, and training. The program aims to make the learning of bioinformatics more engaging, inclusive and accessible. We will invite experts, early career researchers/scientists, and Ph.D. students to share their knowledge and skills. If you are interested to contribute, do get in touch with us. The videos will be live-streamed and be made available for later viewing. This materials will serve as an open bioinformatics resource for the community. In the process, we hope to promote the discovery and sharing of bioinformatics. Video-based learning resources for bioinformatics are still scarce. Some of them are not available in English. If available, they are not free. Even if they are free, they usually only cover the introduction aspects, with very basic discussions. Most of the specific and intermediate-to-advanced discussions or skills are usually not available. This hampers the learning of bioinformatics in solving complex biological problems. Through APBioNETTalks, we hope to contribute to bridge this gap by providing an open access video-based bioinformatics learning resources for the community.
- How to Get Involved
- Upcoming Activities
- Past Activities
- Revolutionising genome analysis with machine learning and cloud computing by Dr Natalie Twine
- Structural phylogenetics (Demo Talk) by Dr Ashar Malik
- Benchmarking de novo genome assembly methods by Prof. Shoba Ranganathan
- 3D substructure searching and comparisons: methods, applications and directions by Assoc. Prof. Dr Mohd Firdaus Raih
- Why social media matters for research now more than ever by Michelle Mendonca
- Rare disease genomics: Challenges and myths by Dr Prashanth N Suravajhala
- Sugars in the cloud: Machine learning and data science for glycobiology by Dr Daniel Bojar
- Applications of long read sequencing in plant genomics by Prof. Dr. Boas Pucker
- Contributors
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Speaker: if you are passionate about sharing the latest developments and/or know-how in your area of expertise to the community, we welcome you to contribute a talk/demo/tutorial/workshop to APBioNetTalks. Please help complete this form, which would capture all the relevant information we need. You can make multiple submissions if you are keen to contribute more.
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Organising or Scientific committee members: Join our team to bring inclusive and open-access learning avenue for scientific community. Note that this is a pro bono. With your support, we hope we can continuously provide inclusive and accessible contents for you. We believe that open science will make research more reproducible, more transparent and more collaborative. Apply here.
We are committed to providing a welcoming and inspiring platform for all. Please follow our code of conduct in all kind of activities related to APBioNETTalks.
June 20, 2024, 5 PM SGT
Dr. Bingxin Lu, Surrey Future Fellow, Section of Systems Biology and Surrey Institute for People-Centred AI, University of Surrey
Abstract:
Chromosomal instability (CIN), a constantly high frequency of chromosome segregation errors during cell divisions, is a major form of genome instability and plays an import role in intra-tumour heterogeneity, metastasis, and therapy resistance. CIN often leads to structural or numerical chromosomal alterations, such as structural variants and copy number alterations. Linking these alterations detected from cancer genomics data with stochastic modelling and Bayesian inference provides a powerful approach to quantify CIN in an evolutionary context, which helps to better understand cancer evolution and inform cancer treatment. In this talk, I will share our work on modelling experimental and real data with this approach.
Bio:
I am currently a Surrey Future Fellow, at Section of Systems Biology and Surrey Institute for People-Centred AI, University of Surrey.
Before joining Surrey, I was a Postdoc at Department of Cell and Developmental Biology University College London, where I worked on dynamical modelling of chromosomal instability (CIN) in cancer genomes. Previously, I was a Postdoctoral Fellow at Genome Institute of Singapore, where I mainly developed pipelines and methods to analyse tumour heterogeneity and clonal evolution in liver and lung cancer genomes. I completed my PhD in Computational Biology at School of Computing National University of Singapore, where I developed machine learning and phylogenetic methods for problems related to lateral gene transfer. I obtained my Master’s and Bachelor’s degree from Software Engineering Institute East China Normal University, where I led the development of platforms for high-throughput biological data analysis, including RNA-Seq and proteomic data.
My research is in the broad field of computational biology, which bridges software engineering, machine learning, algorithms, statistics, phylogenetics, population genetics, and omics. I am particularly interested in developing new computational methods and models to address important biological problems related to human health. My goal is to facilitate the mining of new knowledge from the accumulating huge amounts of data for the biological and biomedical community. I have developed several new methods and applied available methods to tackle basic questions arising in the study of species and cancer evolution. My current primary interests are evolutionary dynamics of cancer genomes, especially those driven by CIN, which are still less well studied than point mutations but critical in tumorigenesis and patient treatment. https://icelu.github.io
- Revolutionising genome analysis with machine learning and cloud computing
- Structural phylogenetics
- Benchmarking de novo genome assembly methods
- 3D substructure searching and comparisons: methods, applications and directions
- Why social media matters for research now more than ever
- Rare disease genomics: Challenges and myths
- Sugars in the cloud: Machine learning and data science for glycobiology
- Applications of long read sequencing in plant genomics
Creator:
- Hilyatuz Zahroh
- Mohammad Asif Khan
Program coordinator (2020-present): Hilyatuz Zahroh
Scientific Committee: Mohammad Asif Khan
Recurring Contributors:
- Li Chuin Chong
- Debangana Chakravorty
- Deeksha Pandey
- Rizkyana Avissa
- Sharanya Manoharan
- More to come..