John is a UC Berkeley grad. who majored in film. He has suffered from a life-long unknown condition characterized by chronically low body weight, weakness, GI issues, and pain. He is an advocate for rare and undiagnosed disease and actively works on connecting the field. John lives in Los Angeles and will be joining us for the weekend.
SVAI Research Team Member, Analyst at Facebook.
[SVAI Welcoming Talk]
Annabelle participated in SVAI’s first patient genomics hackathon and joined the SVAI team shortly after. She was a critical part of organizing our second patient research case and recently helped run Stanford’s first Health AI hackathon. She studied molecular, cell and developmental biology at UC Santa Cruz and has held positions at Natera and Gaurdant Health. She is currently a Developer Operations Analyst at Facebook.
Ben Busby, PhD
Computational Biology Branch, NCBI, NLM, NIH
[MC, Knowledge Support, Analysis Reviewer]
Ben leads the NIH's efforts to partner with Genomics hackathons. His research interests include generation of clustering algorithms for analysis of large gene families and whole genomes and Phylomic Analysis of Gene Transfer Events. Ben holds a PhD in Biochemistry and Molecular Biology from University of Maryland, Baltimore.
SVAI Research Team Member.
Technical Development Engineer, Individualized Neoantigen Specific Therapeutics, Genentech.
[Co-MC, Knowledge Support, Analysis Reviewer]
"Ryan is a Technical Development Engineer at Genentech working on individualized neoantigen specific therapeutics, an mRNA-based platform for mobilizing an immune response against cancer based on an individual patient's tumor mutations. Prior, his experience spanned biologics process development, bioinformatics, cell therapy and tissue engineering. Ryan is motivated by the promise of personalized healthcare, particularly through the convergence of proactive patient monitoring, dynamic data exchange and individualized medicine."
Ankita Das, PhD
Marketing Manager, MEDGENOME.
Ankita specializes in studying Epigenetic mechanisms that regulate stem and progenitor cell differentiation during development. She has extensive experience in studying various vertebrate organisms including zebrafish and mice to study in vivo developmental processes, using imaging & genetic strategies. She is enthusiastic about entrepreneurship, and has designed a mentoring program serving Hopkins fellows considering careers in entrepreneurship / start-ups and venture capital strategists. She also serves on the board of Innovation Factory at JHU Carey School of Business to facilitate team building and peer mentoring between business school and science students interested in Entrepreneurship.
CTO at doc.ai.
Akshay’s interests are in developing and applying poly-omics data combinations to healthcare and life sciences. Building the Real-World-Evidence based data collection and sharing tools to empower users to take control of their health. The natural extension to these interests are applied towards Clinical trials and Observational trials and Personalized health predictions He had developed:
doc.ai’s Medical research companion app, crestle.ai: Deep learning platform with prediction machine (for life sciences) and MyWobble/Genewall, a Bioinformatics app to understand your genome. “I am attracted to the magnetic allure of biology and healthcare.”
Hari Singhal, PhD
Lead Data Scientist, Diagnostics Information Solutions at Roche.
“I have experience in leading projects that apply big data, machine learning and artificial intelligence techniques for understanding molecular mechanisms that promote cancer. My research interests are to investigate the regulatory networks that drive cancers and to deploy the generated knowledge for improvement of healthcare. More recently I have been researching the immunotherapeutic basis of blocking PDL1 for treating patients with advanced solid tumors of lung, renal and urothelial tissues.” previously, Hari was a cancer genomics scientist at Harvard Medical School. He completed his PhD in cancer oncology at University of Chicago.
Alexandre is the cofounder of Jungla, which seeks to maximize the impact of genomic information across healthcare and lifesciences through advanced experimental and computational innovations in a transparent, actively learning platform. As the Lead of Technical Development at Jungla, Alex is chiefly responsible for architecting Jungla's Unified Computational Platform, which leverages a unique workflow-first architecture for accessibility, scalability and reproducibility of computational biology spanning biophysics, genomics and clinical genetics. Alex is the coauthor of numerous academic manuscripts and patent applications, and is passionate about technology development that enables teams to fulfill their full potential. Alexandre received PhD in Biophysics from Stanford University.
PhD Candidate at Stanford University.
“I'm a graduate student in Bioengineering interested in precision health, drug discovery/repurposing, understanding the biology underlying disease, and predicting health outcomes. I apply statistics and machine learning to population genomics data. I'm also involved in consulting projects and teaching experiences encompassing technology transfer and regulatory processes.”
"My current interests are primarily in deep learning for computer vision, image search, and visual similarity search. I am also particularly interested - both from a research perspective as well as a productization perspective - in intelligent systems that allow users to express search intentions or information-needs in nuanced ways that are otherwise difficult to express by language or classical search tools." Clay complted his graduate studies at Stanford University with a dual focus in Human-Computer Interaction and Artificial Intelligence. Prior to joining Google, he worked on Computer Vision and Machine Learning Team at Yahoo on many topics, including scaling deep learning and computer vision technologies for Yahoo products, product integrations, large-scale approximate nearest neighbor search, deep learning for visual similarity search, and visualization tools."
More speakers and knowledge supporters will be announced soon!
San Francisco, CA 94103
This is a weekend hackathon style event, and it will not run overnight. If you are traveling from outside of the Bay Area and need a place to stay please join #bay-area-housing in slack to coordinate potential housing with other participants.
TRANSPORTATION & PARKING
BART Transit: 1.0 mile walk from 16th and Mission Station.
Ride-Share: Please join #transportation in our slack channel to coordinate ride sharing with other participants.
FOOD & DRINKS
All meals and drinks will be provided for the weekend. The menu will be posted here when known.
Thank you to the following people who were provided critical support for this patient case.
Laura D’Angelo, Head of Investor Relations at Invitae: Laura initiated and managed every aspect of our relationship with Invitae.
Luke Hikey, Senior Director, Strategic Marketing, Pac Bio: Luke provided the consumables for the patients Long Read Sequencing on the Pac Bio Sequel machine.
Delara Chizari, PhD Candidate at Harvard University, Co-Founder & CEO at Psykia Institute: Delara and Cosmo introduced us to John! (patient).
Clinton (Cosmo) Mielke, PhD, Data Scientist, UCSF Memory and Aging Center, Founder, Infinome: Delara and Cosmo introduced us to John! (patient).
Lily Vittayarukskul, SVAI team member 2018-2019: Lily was involved from the first day we met John and helped start this case on the SVAI team.