Jekyll2023-10-14T18:56:20+00:00https://reimandlab.org/feed.xmlThe Reimand lab works on computational biology and cancer research at the Ontario Institute for Cancer Research and University of Toronto. We are located at the MaRS Centre in Toronto, Canada. Reimand Lab2023-10-13T00:00:00+00:002023-10-13T00:00:00+00:00https://reimandlab.org/news/Diogo_ICSB_2023<p>Diogo Pellegrina gave a talk at the International Conference on Systems Biology in Hartford (CT, USA). Diogo presented his recent work on human genetic variation and phospho-signalling networks in the context of COVID-19 using datasets from the HostSeq project.</p>Reimand Lab

Diogo Pellegrina gave a talk at the International Conference on Systems Biology in Hartford (CT, USA). Diogo presented his recent work on human genetic variation and phospho-signalling networks in the context of COVID-19 using datasets from the HostSeq project.

2023-08-13T00:00:00+00:002023-08-13T00:00:00+00:00https://reimandlab.org/news/Masroor_Bayati_Awards<p>Congratulations to Masroor Bayati (Reimand lab) who was awarded the 2023-2024 MBP Excellence Award by the department of Medical Biophysics at the University of Toronto, and the MBP Caven Fellowship award.</p>Reimand Lab

Congratulations to Masroor Bayati (Reimand lab) who was awarded the 2023-2024 MBP Excellence Award by the department of Medical Biophysics at the University of Toronto, and the MBP Caven Fellowship award.

2023-07-11T00:00:00+00:002023-07-11T00:00:00+00:00https://reimandlab.org/news/Alec_Bahcheli_Award<p>Congratulations to Alec Bahcheli (Reimand lab) who was awarded the 2023-2024 Ontario Graduate Scholarship at the University of Toronto, department of Molecular Genetics.</p>Reimand Lab

Congratulations to Alec Bahcheli (Reimand lab) who was awarded the 2023-2024 Ontario Graduate Scholarship at the University of Toronto, department of Molecular Genetics.

2023-06-06T00:00:00+00:002023-06-06T00:00:00+00:00https://reimandlab.org/news/GLBIO_poster_2023<p>Masroor Bayati and Kevin Cheng gave a poster presentation at the GLBIO conference 2023 in Montreal from May 16th to 18th, 2023. Masroor’s poster title: Systematic pan-cancer analysis to reveal the prognostic significance of driver mutations and the tumor immune microenvironment. Kevin’s poster title: Treatment-associated mutation rate variation in regulatory elements in metastatic cancer genomes.</p>Reimand Lab

Masroor Bayati and Kevin Cheng gave a poster presentation at the GLBIO conference 2023 in Montreal from May 16th to 18th, 2023. Masroor’s poster title: Systematic pan-cancer analysis to reveal the prognostic significance of driver mutations and the tumor immune microenvironment. Kevin’s poster title: Treatment-associated mutation rate variation in regulatory elements in metastatic cancer genomes.

2023-06-06T00:00:00+00:002023-06-06T00:00:00+00:00https://reimandlab.org/news/research_article_in_nature_communications<p>Nina Adler and Jüri Reimand collaborated with Dzana Dervovic and Daniel Schramek at the Lunenfeld-Tanenbaum Research Institute and UofT Department of Molecular Genetics on the systematic discovery of the regulators of immune therapy response in lung cancer. Nina led integrative pathway enrichment analyses to interpret the functional roles of the identified target genes in human lung cancers. The study was published this week in <a href="https://www.nature.com/articles/s41467-023-38841-7" target="_blank">Nature Communications</a>.</p>Reimand Lab

Nina Adler and Jüri Reimand collaborated with Dzana Dervovic and Daniel Schramek at the Lunenfeld-Tanenbaum Research Institute and UofT Department of Molecular Genetics on the systematic discovery of the regulators of immune therapy response in lung cancer. Nina led integrative pathway enrichment analyses to interpret the functional roles of the identified target genes in human lung cancers. The study was published this week in Nature Communications.

2023-05-23T00:00:00+00:002023-05-23T00:00:00+00:00https://reimandlab.org/news/research_article_in_frontiers<p>Diogo Pellegrina co-led a collaboration with Dr. Mamatha Bhat (UHN) on the transcriptomic analysis of post-transplant liver disease that revealed dysregulation of wound healing pathways. The study was published this week in <a href="https://doi.org/10.3389/fendo.2023.1111614" target="_blank">Frontiers in Endocrinology</a>. We profiled the transcriptomes of livers with post-transplant nonalcoholic steatohepatitis (PT-NASH) from liver transplant recipients to identify dysregulated genes, pathways, and molecular interaction networks.</p>Reimand Lab

Diogo Pellegrina co-led a collaboration with Dr. Mamatha Bhat (UHN) on the transcriptomic analysis of post-transplant liver disease that revealed dysregulation of wound healing pathways. The study was published this week in Frontiers in Endocrinology. We profiled the transcriptomes of livers with post-transplant nonalcoholic steatohepatitis (PT-NASH) from liver transplant recipients to identify dysregulated genes, pathways, and molecular interaction networks.

2023-05-05T00:00:00+00:002023-05-05T00:00:00+00:00https://reimandlab.org/news/preprint_published_in_bioRxiv<p>We posted a new preprint on <a href="https://doi.org/10.1101/2023.04.07.536030" target="_blank">bioRxiv</a>. Our integrative pan-cancer analysis shows that IP genes display highly-elevated expression patterns in subsets of cancer samples significantly more often than expected transcriptome-wide. To enable target identification, we identified 410 survival-associated IP genes in 29 cancer types using a machine learning approach.</p>Reimand Lab

We posted a new preprint on bioRxiv. Our integrative pan-cancer analysis shows that IP genes display highly-elevated expression patterns in subsets of cancer samples significantly more often than expected transcriptome-wide. To enable target identification, we identified 410 survival-associated IP genes in 29 cancer types using a machine learning approach.

2023-04-05T00:00:00+00:002023-04-05T00:00:00+00:00https://reimandlab.org/news/Mykhaylo_CSHL_2023<p>Mykhaylo Slobodyanyuk (Reimand lab) gave a poster presentation at the 8th Cold Spring Harbor Laboratory meeting in NY (USA) on March 16, 2023. Poster title: Direction-aware data fusion techniques for multi-omics pathway and network analysis and biomarker discovery.</p>Reimand Lab

Mykhaylo Slobodyanyuk (Reimand lab) gave a poster presentation at the 8th Cold Spring Harbor Laboratory meeting in NY (USA) on March 16, 2023. Poster title: Direction-aware data fusion techniques for multi-omics pathway and network analysis and biomarker discovery.

2023-04-05T00:00:00+00:002023-04-05T00:00:00+00:00https://reimandlab.org/news/preprint_published_in_biorxiv<p>We posted a new preprint on <a href="https://doi.org/10.1101/2023.03.19.533271" target="_blank">bioRxiv</a>. We analysed the protein-coding impact of single base substitution signatures in 12,341 cancer genomes from 18 cancer types. Stop-gain mutations (SGMs) were strongly enriched in the signatures of tobacco smoking, APOBEC cytidine deaminases, and reactive oxygen species. Our study exposes SGM expansion as a genetic mechanism by which endogenous and carcinogenic mutational processes contribute to protein loss-of-function, oncogenesis, and tumor heterogeneity, providing potential translational and mechanistic insights.</p>Reimand Lab

We posted a new preprint on bioRxiv. We analysed the protein-coding impact of single base substitution signatures in 12,341 cancer genomes from 18 cancer types. Stop-gain mutations (SGMs) were strongly enriched in the signatures of tobacco smoking, APOBEC cytidine deaminases, and reactive oxygen species. Our study exposes SGM expansion as a genetic mechanism by which endogenous and carcinogenic mutational processes contribute to protein loss-of-function, oncogenesis, and tumor heterogeneity, providing potential translational and mechanistic insights.

2023-01-23T00:00:00+00:002023-01-23T00:00:00+00:00https://reimandlab.org/news/Diogo-Pellegrina-Congratulations<p>Congratulations to Diogo Pellegrina (Reimand lab) who received a postdoctoral STAGE HostSeq Project fellowship to continue studying the role of human genetic variation and signalling networks in the context of SARS-CoV-2 infection and COVID-19 in Canadians.</p>Reimand Lab

Congratulations to Diogo Pellegrina (Reimand lab) who received a postdoctoral STAGE HostSeq Project fellowship to continue studying the role of human genetic variation and signalling networks in the context of SARS-CoV-2 infection and COVID-19 in Canadians.