Extracting Information from Clinical Text for Secondary Use Applications

Mission Hall, Room 1407 550 16th Street, San Francisco, CA

SPEAKER: Meliha Yetisgen, PhD. In this talk, I will summarize the ongoing research in my lab on building generalizable machine learning based Natural Language Processing (NLP) approaches to process clinical text for secondary use applications in the domains of cancer and substance abuse.

After the Algorithm: Making Machine Learning Work in Healthcare

Genentech Hall Room 600 16th St, Room N114, San Francisco

Innovate For Health presents Dr. Leonard D’Avolio, Assistant Professor Brigham & Women’s Hospital & Harvard Medical School Co-founder, Cyft Abstract: In his talk, titled "After the Algorithm: Making Machine Learning Work for Healthcare," Leonard D'Avolio, Ph.D. shares lessons learned from 15 years of experience designing, developing, and deploying machine learning-enabled systems in academic, government, philanthropic, and […]

UCSF-Stanford Joint Symposium Series on Biomedical Informatics

Byers Auditorium, Genentech Hall 600 16th St, CA

Presentations:  2-4 pm Reception: 4-5 pm Speakers: Ida Sim, MD, PhD - Professor of Medicine; Co-director of Informatics and Research Innovation, Clinical and Translational Sciences Institute; Director of Digital Health, Division of General Internal Medicine, UCSF Andrew Gentles, PhD - Assistant Professor of Medicine in Biomedical Informatics and Biomedical Data Science, Stanford University Courtney Lyles, […]

Advanced computational methods with UCSF clinical data on Information Commons

Byers Hall, Room 215 600 16th Street, San Francisco, CA

In this hands-on workshop, we will go through a real case study to explore de-identified UCSF Electronic Health Records using UCSF Information Commons. You will learn how to query UCSF clinical data and gain some of the skills necessary for building your own computational models in this environment.

Postponed: Bakar Institute Seminar Series

Mission Hall 1401 550 16th St, San Francisco

Please note that this seminar is postponed. A new date will be determined. Speaker: Hyun Min Kang, Associate Professor of Biostatistics University of Michigan, Ann Arbor Title : Robust and scalable methods for massively sequenced genomes and single-cell transcriptomes Abstract : The rapidly accelerating pace of genome and single-cell transcriptome sequencing holds great promise for […]

Seminar Series

Zoom Only

Robust and scalable methods for massively sequenced genomes and single-cell transcriptomes Speaker: Hyun Min Kang, Ph.D. ABSTRACT: The rapidly accelerating pace of genome and single-cell transcriptome sequencing holds great promise for precision medicine but also sets us tremendous computational and statistical challenges at an unprecedented scale. These challenges include accurately calling genetic variants from petabytes […]

UCSF AI4ALL Symposium

Zoom Only

Please join us for the AI4ALL Program Symposium! Schedule of Events 1 pm: Symposium Keynote Marylyn Ritchie, PhD “The Future is Now: How Technology and AI Have Advanced Genomics and Medicine”  2 pm: AI4ALL Project Presentations: Project 1: AI for Global Health - AI and COVID-19 Time Series Data Project 2: COVID-19 Protein-Protein Interactions (PPI) […]

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: Yulin Hswen, PhD, Department of Epidemiology & Biostatistics Talk title: TBA   Tony Capra, PhD, Department of Epidemiology & Biostatistics "Beyond single variant hypotheses: machine learning to improve interpretation of candidate rare disease variants" Link to Zoom

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: Abhejit Rajagopal, PhD, Postdoctoral Scholar, Peder Larson Lab, Dept of Radiology and Biomedical Imaging Talk title: TBA Wagahta Semere, MD, MHS, Assistant Professor, Department of Medicine Talk title: TBA

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: Jean Feng, PhD, Assistant Professor, UCSF Department of Epidemiology & Biostatistics Talk title: "Bayesian Logistic Regression for Online Recalibration and Revision of Risk Prediction Models with Safety Guarantees" Ryan Hernandez, PhD, Associate Professor, UCSF Department of Bioengineering and Therapeutic Sciences Talk title: “Evolutionary Forces Shape the Genetic Architecture of Complex Traits”

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: Janine Lupo, PhD, Associate Professor, Department of Radiology and Biomedical Imaging Talk title: TBA Sara Murray, MD, MAS, Associate Professor, Division of Hospital Medicine along with Hossein Soleimani, PhD, Data Scientist, UCSF Health Informatics Talk title: "Automated Measurement of Resident Work Hours" For Zoom information contact edna.rodas@ucsf.edu

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: "Bayesian Reconstruction of Brain Networks with Electromagnetic Imaging" Srikantan Nagarajan, PhD, Professor in Residence of Radiology and Biomedical Imaging   "EHR as Behavioral Microscope: Studying Physician Task Switching and Implications for Outcomes" Julia Adler-Milstein, PhD, Professor of Medicine   For Zoom information contact edna.rodas@ucsf.edu

Bakar Institute-wide Lab Meeting

Zoom Only

Speakers: Gabriela Fragiadakis, PhD, Assistant Professor of Medicine Title: "Profiling immune state using single-cell methods"   Henry Martell, PhD, Postdoctoral Scholar, Pediatrics; Sweet-Cordero Lab Title: “Mutational Signatures In Pediatric Cancer”   Contact edna.rodas@ucsf.edu for Zoom details.

Bakar Institute-wide Lab Meeting

Zoom Only

Speaker: Katie Pollard, Professor, Epidemiology & Biostatistics Title:  “Deep-learning prediction of disease variants that disrupt 3D genome folding"   Contact edna.rodas@ucsf.edu for Zoom details.

Bakar Institute-wide Lab Meeting

Zoom Only

This month's meeting will have two speakers. Please join us!   Title: "SPOKE: a biomedical knowledge graph enables precision medicine at scale" Speaker: Sergio Baranzini, PhD, Professor, UCSF Department of Neurology   Title: "Semantic interoperability for wearable data" Speaker: Simona Carini, MA, Programmer, Ida Sim Lab   Contact edna.rodas@ucsf.edu for Zoom details.

Bakar Institute-wide Lab Meeting

This month’s meeting will have two speakers. Please join us! Title: "Improving Diagnostic Strategies for Injured Children: Machine Learning for Pediatric Abdominal Ultrasound" Speaker: Aaron Kornblith, Associate Professor, Departments of Emergency Medicine and Pediatrics   Title: TBA Speaker: Kate Rankin, Professor, Division of Memory and Aging, Department of Neurology   Contact edna.rodas@ucsf.edu for Zoom details.

Computational Cancer Community (C3) Meeting

Zoom Only

Please join us as we continue to develop a community of practice around cancer research that utilizes computational methods. Speaker: Dan Landau, MD, PhD, New York Genome Center Title: Charting differentiation topologies in somatic evolution via single-cell multi-omics   C3 Faculty Leadership: Joe Costello, Hani Goodarzi, Franklin Huang, Marina Sirota, Alejandro Sweet-Cordero For Zoom information or to […]

Computational Cancer Community (C3) Meeting

Zoom Only

Please join us as we continue to develop a community of practice around cancer research that utilizes computational methods. Speaker:  Francisca (Paquita) Vazquez, PhD, Broad Institute Title: TBA   C3 Faculty Leadership: Joe Costello, Hani Goodarzi, Franklin Huang, Marina Sirota, Alejandro Sweet-Cordero For Zoom information or to be added to the C3 calendar invite, contact edna.rodas@ucsf.edu

Computational Cancer Community (C3) Meeting

Zoom Only

Please join us as we continue to develop a community of practice around cancer research that utilizes computational methods.   Algorithms for single-cell tumor phylogeny inference and deep learning imaging models for tumor purity estimation Iman Hajirasouliha, Ph.D, Assistant Professor of Computational Genomics, Weill Cornell Medicine   C3 Faculty Leadership: Joe Costello, Hani Goodarzi, Franklin Huang, […]

Computational Cancer Community (C3) Meeting

Zoom Only

Please join us as we continue to develop a community of practice around cancer research that utilizes computational methods. Computational approaches for interpreting somatic mutation events in the noncoding cancer genome. Felix Dietlein, MD, PhD Assistant Professor, Harvard Medical School PI, Computational Health Informatics Program, Boston Children’s Hospital   C3 Faculty Leadership: Joe Costello, Hani Goodarzi, […]