Recent News

Congrats to Hamda on her first publication with the lab, Benchmarking Genetic Interaction Scoring Methods for Identifying Synthetic Lethality from Combinatorial CRISPR Screens, up now on biorXiv.

Congratulations to Dr. Anjan Venkatesh, who successfully defended his thesis ‘A systematic study of paralog and protein complex response to gene loss in cancer’ on February 14th (💘).

Congratulations to Dr. Cosmin Tudose, who successfully defended his thesis ‘Defining molecular vulnerabilities in childhood leukaemia through biological network analysis’ on November 19th.

Congrats to Olivier on his first publication with the lab, Evaluating Sequence and Structural Similarity Metrics for Predicting Shared Paralog Functions, up now on biorXiv.

Compensation between duplicate genes (paralogs) allows cancer cells to tolerate genetic mutations that might otherwise be lethal. We wanted to know what this compensation looked at a molecular level – what are the proteins involved doing? How come losing functional genes doesn’t just just break the protein-protein interaction networks operating inside cancer cells?

The lab was well represented at the Conway Festival of Research 2024. Colm gave an invite lectured, Cosmin was a runner up in the Gold Medal competition for his NAR Cancer paper and Narod, Metin, Olivier and Hamda all presented posters. We didn’t take enough photos, but managed to capture Metin and Olivier in action.

Congratulations to Dr. Swathi Upadhya, who successfully defended her thesis ‘On the predictability and prediction of protein abundances in tumours’ on December 12th.

Congrats to Dr. Barbara De Kegel on the publication of her work to understand how the dispensability of paralogs shapes homozygous deletion patterns in tumors.

Congrats to Swathi on the publication of her work to understand the influence of antibody quality on the mRNA-protein correlations observed in tumour cohorts.

Congratulations to Dr. Thomas Lefeivre, who successfully defended his thesis ‘Investigation of the functional interplay between signalling pathways and epigenetic factors in acute leukaemia’ on April 18th.

Gene regulatory networks (GRNs) are widely used to understand how driver mutations in tumours alter transcriptional networks and to identify new therapeutic targets. Here, we use genome-wide CRISPR screen data to systematically evaluate the ability of GRNs to predict sensitivity to genetic perturbation in cancer.

Just approaching the end of the year, we had the opportunity to present our work at #ICGB2022.

We are currently looking for computational postdoctoral fellows! More details here Photo above is from a lab hike during COVID times. In Dublin we cannot promise constant sunshine, but we can promise the benefits of living in a capital city coupled with close proximity to the sea and some lovely scenery.

After more than two years with conference travel halted due to COVID-19, lab members have finally had the opportunity to attend in person conferences.

Everyone knows that there is an imperfect correlation between mRNA and protein abundances. In Swathi’s recent paper we analysed how much measurement (ir)reproducibility contributes to this.

After some happy and productive years at Systems Biology Ireland we have moved to the adjacent Conway Institute of Biomolecular and Biomedical Research

Congratulations to Thomas Lefeivre, who is a member of both the Bond Group and the Ryan group for giving a talk titled ‘The loss of PRC2 function diversely impacts signalling pathway activity in acute leukaemia’ at the Spetses Summer School 2022.

Congratulations to Dr. Barbara De Kegel, who passed her viva with flying colours last week.

Congratulations to Swathi Ramachandra Upadhya for winning the prize for best student talk at the Irish Mass Spectrometry Society Conference 2022.