• Licensing for the biodata scientist: Presentation to the Moore Lab

    Presentation to the Moore Lab at Penn (epistasis.org) on April 10, 2017 at 12:00 pm in Richards room 309. This presentation is released under a CC BY 4.0 License.

  • Integrating data towards a systematic understanding of drug efficacy

    Presentation to Pfizer in Cambridge, MA. These slides are released under a CC BY 4.0 License.

  • Integrating biomedical knowledge to predict new uses for existing drugs

    Presentation for the Models, Inference & Algorithms Group on the Broad Institute (https://www.broadinstitute.org/scientific-community/science/mia/models-inference-algorithms) on February 22, 2017. These slides are released under a CC BY 4.0 License. The recording of this presentation in on YouTube at https://goo.gl/Vtd0Gs.

  • Big Data Seminar at Penn: Hetionet in Neo4j

    Presentation for the Seminar/Reading Group on Big and Scientific Data at Penn (http://www.cis.upenn.edu/~zives/datascience/) on February 10, 2017.

  • To Blackfynn: predicting antiepileptic drugs in Project Rephetio

    Presentation to Blackfynn in Philadelphia on Monday, January 30, 2017.

  • Greene Lab Journal Club on January 13, 2017

    Greene Lab Journal Club at the University of Pennsylvania on January 13, 2017.

  • OpenCon 2016 Presentation on Project Cognoma

    Project Cognoma is an open source project to create a webapp for analyzing cancer data. We're a community-driven philanthropic project that began as a collaboration between the Greene Lab, DataPhilly, and Code for Philly. This presentation covers mobilizing community contributors for full stack data science. It's licensed as CC BY 4.0.

  • The Cognoma Collaborative creates a webapp to predict cancer mutations from gene expression

    Presentation at Rocky Bioinformatics 2016 on Friday December 9, 10:05–10:15 am (OP 18). Titled: The Cognoma Collaborative creates a webapp to predict cancer mutations from gene expression.

  • Lecture for CIS 550 at Penn: the emerging role of graph databases in information systems

    Lecture on graph databases for Database & Information Systems (CIS 450/550) at the University of Pennsylvania. This course is instructed by Susan Davidson. This presentation is released under a CC BY 4.0 License.

  • Open Data Science

    Guest lecture for the course Data Science for Biomedical Informatics (EPID 600) at the University of Pennsylvania. This course was instructed by Assistant Professor Blanca Himes. This presentation is released under a CC BY 4.0 License.

  • Hetionet Awakens: Integrating all of Biology into a Public Neo4j Database

    Lightning talk at GraphConnect 2016. See abstract at http://graphconnect.com/speaker/daniel-himmelstein/. This presentation is released under a CC BY 4.0 License.

  • Greene Lab Journal Club on September 9, 2016

    Greene Lab Journal Club on September 9, 2016.

  • Greene Lab Journal Club on July 15, 2016

    Greene Lab Journal Club on July 15, 2016. Since this is my first time giving journal club in the Greene Lab, I am entitled to discuss any articles of my choosing, not just recent articles.

  • Cognoma Datathon Meetup on July 12, 2016

    Outline and tasks for the Cognoma Datathon Meetup on July 12, 2016 located at Industrious in Philadelphia. This presentation is released under CC0 unless otherwise noted.

  • DataPhilly Datathon Workshop · Hetnets + Biomedicine + Neo4j = Hetionet

    This presentation introduces Hetionet and Neo4j for the datathon workshop organized by the DataPhilly and Code for Philly meetups on July 5, 2016. At the end, we introduce Project Cognoma, which will be the focus of future hack nights.

  • Thesis Seminar · Daniel Himmelstein · Biological & Medical Informatics · UCSF

    Daniel Himmelstein's Thesis Seminar covering his PhD studies. See the accompanying recording on YouTube (https://youtu.be/H8DfXop8K7g). This presentation is released under a CC BY 4.0 license.

  • Drug repurposing by hetnet relationship prediction: a new hope

    The Rebels have searched the galaxy and obtained neo4j technology. They now plan to use the force on hetnets to predict new uses for existing drugs. Learn to use the dark side of the force and stop the Rebels before they destroy the Empire. (My presentation for iPQB Journal Club on February 29, 2016.)

  • 2015 QBC Retreat: hetnets in human disease

    My talk for the 2015 UCSF QBC retreat at the Asilomar Conference Grounds. All original content is CC0.

  • Copyright versus open science: a story of data integration

    WATCH ONLINE at https://youtu.be/2Y2OIutYE4Y. OpenCon. ABSTRACT: We recently created a network for drug repurposing with 3 million edges. Creating the network brought together 27 collaborators who communicated via 266 CC-BY posts. The network integrates data from 28 public resources. However, each source imposes it’s own (often incompatible) restrictions, implicitly by copyright or explicitly by licensing. We’ve contacted 10 resources, with only a single affirmative response. We’re currently exposing the harms of transferring data copyright to publishers as well as Universities that seek to profit from publicly-funded databases while preventing reuse.

  • Realtime open science on Thinklab & The horrors of data copyright

    Presentation for Open Access Week 2015 – Let’s Collaborate! Boost your Citations and Visibility. Register at https://tiny.cc/letscollaborate. All original content is released under the CC0 1.0 public domain dedication.

  • Greene Lab Interview

    Delivered on 2015-09-24 to the Greene Laboratory, stationed at the University of Pennsylvania. All original content is released under a CC0 license. Follow hyperlinks for attribution of reused content.

  • Statistical forays of a modern biodata scientist

    Presentation to the incoming iPQB students at UCSF on 2015-09-04. More information on the bootcamp at https://sites.google.com/site/ipqbbootcamp2015/bioinformatics-and-statistics

  • Butte Lab Meeting

    Presentation to the Atul Butte group at UCSF on July 8, 2015

  • Data Biologist Cookbook

    Presentation to the incoming iPQB students at UCSF on September 17, 2015.

  • Elevation and Lung Cancer

    Lung cancer incidence decreases with elevation: evidence for oxygen as an inhaled carcinogen