OLISSIPO Lecture: “Universal Sequence Maps, from biological sequences to numbers and back” by Prof. Jonas Almeida (National Cancer Institute)

OLISSIPO Lecture: “Universal Sequence Maps, from biological sequences to numbers and back” by Prof. Jonas Almeida (National Cancer Institute)

On February 14, at 10:00, the OLISSIPO project will host an online talk (live transmission) by Prof. Jonas Almeida, from the National Cancer Institute. The talk is titled “Universal Sequence Maps, from biological sequences to numbers and back”.

Date & Time: February 14, 10:00-11:00
Where: Online via Zoom (here) or at INESC ID Alves Redol Building I Room 336 (3rd floor) (live transmission)

Abstract: “Universal Sequence Maps (USM) are an iterated mapping technique that can represent sequence succession in a manner that is both bijective and scale-free. In its original unidirectional form, proposed in 1990 as Chaos Game Representation (CGR), it was proposed as a graphical representation of gene structure that borrowed methodologically from statistical mechanics of complex dynamic phenomena. Over a decade later, CGR was found to provide an alignment-free route to sequence analysis that generalizes Markovian succession. In the subsequent 2 decades, new properties were uncovered and the iterated technique was reformulated, as reviewed in this presentation. Intriguingly, the modern bidirectionally iterated form, USM, appears to offer a convenient route to develop language models of Biological sequences for generative AI applications.”

Bio: Prof. Jonas Almeida holds the position of (tenured) Senior investigator and Data Science director at the National Cancer Institute, Division of Cancer Epidemiology and Genetics (NIH/NCI intramural program). He also maintains academic positions at the State University of New York (SUNY – Stony Brook), Queen’s University Belfast, UK, and George Mason University in Virginia. He started his academic career at the University of Lisbon (PhD Biological Engineering, 1995), where he remains involved in collaborative initiatives towards Artificial intelligence, Cloud Computing, and the development of consumer-facing polygenic risk calculators for Precision Prevention. For the list of publications and a more granular biosketch see jonasalmeida.info.

The event is finished.


INESC-ID, “Instituto de Engenharia de Sistemas e Computadores: Investigação e Desenvolvimento em Lisboa” is a Research and Development and Innovation Organization (R&D+i) in the fields of Computer Science and Electrical and Computer Engineering. INESC-ID mission is to produce added value to people and society, supporting the response of public policies to scientific, health, environmental, cultural, social, economic and political challenges. INESC-ID promotes cooperation between academia and industry by addressing research on daily life issues, such as healthcare, space, mobility, agri-food, industry 4.0, and smart grids. This high level of knowledge transfer is achieved through both competitive research projects and direct contracted research. Public and private entities have therefore access to a pool of knowledge, resources and services provided through the unique competencies available at the institution.


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