Giovanni Mazzocco

University of Warsaw | UW · Centre of New Technologies

Background: The purpose of our study is to aid the development of adoptive T-cell receptor (TCR) -based cancer therapies with an AI platform that models binding between peptide-human leukocyte antigen (pHLA) complexes and TCRs. One of the main challenges in the field is finding the right pHLA target and the TCR that binds it. The development of in...

Background Adoptive cell therapies with T lymphocytes expressing engineered T cell receptors (TCRs) are one of the most promising approaches to cancer therapy. ¹ However, the experimentally driven development of novel TCR therapies is limited by the enormous biological variability of peptide:Human Leukocyte Antigen:TCR (pHLA:TCR) complexes. The in...

The heavy burden imposed by the COVID-19 pandemic on our society triggered the race toward the development of therapies or preventive strategies. Among these, antibodies and vaccines are particularly attractive because of their high specificity, low probability of drug-drug interaction, and potentially long-standing protective effects. While the th...

The heavy burden imposed by the COVID-19 pandemic on our society triggered the race towards the development of therapies or preventive strategies. Among these, antibodies and vaccines are particularly attractive because of their high specificity, low probability of drug-drug interaction, and potentially long-standing protective effects. While the t...

The purpose of this study is to evaluate the importance of immune escape mechanisms (IEMs) when designing cancer immunotherapeutic strategies. Cancer IEMs induced by negative selective pressure on tumor cells can have dramatic effects on immunotherapy treatment outcome. IEMs occurring during cancer evolution have been shown to facilitate loss of mu...

Introduction: The purpose of this study is to present a novel method for neoepitope prediction, along with extensive benchmarks to existing solutions and identification of the most predictive constituent biological features. The accurate prediction of neoepitope immunogenicity represents an invaluable tool for the design of personalized cancer vacc...

The purpose of this study is to present a novel method for neoepitope prediction, along with extensive benchmarks to existing solutions and identification of the most predictive constituent biological features. The accurate prediction of neoepitope immunogenicity represents an invaluable tool for the design of personalized cancer vaccines with effe...

The influenza virus type A (IVA) is an important pathogen which is able to cause annual epidemics and even pandemics. This fact is the consequence of the antigenic shifts and drifts capabilities of IVA, caused by the high mutation rate and the reassortment capabilities of the virus. The hemagglutinin (HA) protein constitutes the main IVA antigen an...

Recent advances in high-throughput chromosome conformation capture (3C) technology, such as Hi-C and ChIA-PET, have demonstrated the importance of 3D genome organization in development, cell differentiation and transcriptional regulation. There is now a widespread need for computational tools to generate and analyze 3D structural models from 3C dat...

Time series forecasting have attracted a great deal of attention from various research communities. There are many methods which divide time series into subseries. Information granules, fuzzy clustering and data segmentation are among the most popular methods in this field. However all these methods are designed to recognize dependencies between ad...

Protein–protein interactions (PPIs) play a vital role in most biological processes. Hence their comprehension can promote a better understanding of the mechanisms underlying living systems. However, besides the cost and the time limitation involved in the detection of experimentally validated PPIs, the noise in the data is still an important issue...

Human Leukocyte Antigen class II (HLA II) proteins are crucial for the activation of adaptive immune response. In HLA class II molecules, high rate of polymorphisms has been observed. Hence, the accurate prediction of HLA II-peptide interactions is a challenging task that can both improve the understanding of immunological processes and facilitate...

The aftermath of influenza infection is determined by a complex set of host-pathogen interactions, where genomic variability on both viral and host sides influences the final outcome. Although there exists large body of literature describing influenza virus variability, only a very small fraction covers the issue of host variance. The goal of this...

Erratum to: Immunogenetics DOI 10.1007/s00251-012-0665-6 The Acknowledgments section of the original version of this article inadvertently contained a small but significant mistake: it should read that Mr. I. Saha was provided with a "National Doctoral Fellowship (NDF)", not a "National Doctorate Fellowship".

Class II human leukocyte antigens (HLA II) are proteins involved in the human immunological adaptive response by binding and exposing some pre-processed, non-self peptides in the extracellular domain in order to make them recognizable by the CD4+ T lymphocytes. However, the understanding of HLA-peptide binding interaction is a crucial step for desi...