Uzun Lab holds Journal Clubs on the second Friday every month at 3pm (EST) over Zoom. We have great discussions on papers about Bioinformatics, Machine Learning, Genomics and Data Science.
If you would like to join , please fill in the form to receive the Zoom link!
For questions, please email Dr. Uzun (dilber_gamsiz@brown.edu)
October 2023: No Journal Club.
September 2023: Co-hosted by Brown/Lifespan Center for Clinical Cancer Informatics and Data Science (CCIDS). Dr. Sandeep Jain, HemeOnc Fellow, Warner Lab, A new tool for evaluating health equity in academic journals; the Diversity Factor, PLOS Global Public Health
August 2023: Jessica Patricoski, PhD Student at Uzun Lab, Predicting Hormonal Therapy Medication Discontinuation for Breast Cancer Patients using Structured Data in Electronic Medical Records, AMIA Jt Summits Transl. Sci. Proc.
July 2023: No journal club. Enjoy your summer break!
June 2023: Jennifer Li, Undergraduate Researcher at Uzun and Uzun Labs, Transfer learning enables predictions in network biology, Nature
May 2023: Palli Kheni, Biotechnology Master’s Student at Uzun Lab, Deep learning assisted multi-omics integration for survival and drug-response prediction in breast cancer, BMC Genomics
April 2023: Benjamin Ahn, Medical Student and Research Student at Uzun and Uzun Labs, Integration of machine learning and genome-scale metabolic modeling identifies multi-omics biomarkers for radiation resistance, Nature Communications
March 2023: Guest Speaker: James Yu , Research Assistant at Warner Lab, Quantitating and assessing interoperability between electronic health records, JAMIA
February 2023: Guest Speaker: Dr. Sean Hacking, Assistant Professor of Pathology, University of Toronto, Swarm learning for decentralized artificial intelligence in cancer histopathology, Nature Medicine
January 2023: No Journal Club due to Brown Winter Break
December 2022: Guest Speaker: Dr. Whijae Roh, Senior Computational Biologist at Pfizer, High-Resolution Profiling of Lung Adenocarcinoma Identifies Expression Subtypes with Specific Biomarkers and Clinically Relevant Vulnerabilities, Cancer Research
November 2022: No Journal Club due to Thanksgiving holiday!
October 2022: Charissa Chou, Research Assistant at Uzun and Uzun Labs, Proteinarium: Multi-sample protein-protein interaction analysis and visualization tool, 2020, Genomics
September 2022: Jiaying Lai, PhD Candidate at Brown University Computational Biology, LYRUS: a machine learning model for predicting the pathogenicity of missense variants, 2022, Bioinformatics Advances
August 2022: Cigdem Ak, Postdoctoral Fellow at OHSU, Fast and interpretable genomic data analysis using multiple approximate kernel learning, 2022, Bioinformatics
July 2022: No Journal Club! Enjoy your summer vacation!
June 2022: No Journal Club! Enjoy your summer vacation!
May 2022: Alexander Knyshov, Postdoctoral Fellow, Schwartz Lab at URI, Predicting and characterizing a cancer dependency map of tumors with deep learning, 2021, Science Advances
April 2022: George Tollefson, Research Assistant, Uzun Lab at Brown University, A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns, 2020, Nature Communications
March 2022: Guest Speaker: Dr. Olivier Poirion, Associate Computational Biologist at Jackson Lab., DeepProg: an ensemble of deep-learning and machine-learning models for prognosis prediction using multi-omics data, 2021, Genome Medicine
February 2022: Guest Speaker: Dr. Sean Hacking, Surgical Pathology Fellow at Brown University, Sammut et al., Multi-omic machine learning predictor of breast cancer therapy response, 2021, Nature
January 2022: No Journal Club due to Brown Winter Break
December 2021: Guest Speaker: Pinar Demetci, PhD candidate at Brown University Computational Biology. Demetci et al., Multi-scale inference of genetic trait architecture using biologically annotated neural networks, 2021, PLOS Genetics
November 2021: Mohammed et al., A stacking ensemble deep learning approach to cancer type classification based on TCGA data, 2021, Scientific Reports
October 2021: Elmarakeby et al., Biologically informed deep neural network for prostate cancer discovery, 2021, Nature
September 2021: Wood et al., A machine learning approach for somatic mutation discovery, 2018, Science Translational Medicine
August 2021: Nartowt et al., Robust Machine Learning for Colorectal Cancer Risk Prediction and Stratification, 2020, Frontiers in Big Data
June 2021: Roger et al., CScape-somatic: distinguishing driver and passenger point mutations in the cancer genome, 2020, Bioinformatics
May 2021: Zhou et al., Whole-genome deep learning analysis identifies contribution of noncoding mutations to autism risk, 2019, Nature Genetics
April 2021: Favalli et al., Machine learning-based reclassification of germline variants of unknown significance: The RENOVO algorithm, 2021, AJHG
February 2021: Lello et al., Genomic Prediction of 16 Complex Disease Risks Including Heart Attack, Diabetes, Breast and Prostate Cancer, 2019, Scientific Reports
January 2021: Trakadis et al., Machine learning in schizophrenia genomics, a case-control study using 5,090 exomes, 2018, Am J Med Genet B Neuropsychiatr Genet
December 2020: Sardaar et al., Machine learning analysis of exome trios to contrast the genomic architecture of autism and schizophrenia, 2020, BMC Psychiatry
November 2020: Satterstrom et al., Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism, 2020, Cell