Methods Core Seminars
Upcoming seminar / workshop:
Materials from past seminars & workshops
Qualitative
- March 2010 — Diving In: Rapid Appraisal and Its Application: Emily Arnold, PhD
Quantitative
- April 7, 2022 - William Brown III, PhD, DrPH, MA, UCSF & Shivani Mehta, MPH, UCSF: User Friendly Natural Language Processing (NLP) of Free-text Clinical Notes at UCSF: EMERSE and cTAKES
- Workshop announcement
- Slides
- Part 1: Recording: User-Friendly Natural Language Processing (NLP) Part 1. Overview of NLP
- Part 2 Recording: User-Friendly Natural Language Processing (NLP) Part 2. Use Case presentations
- Part 3 Recording: User-Friendly Natural Language Processing (NLP) Part 3. Access Walk Through, Discussion, and Questions
- Watch all 3 recordings at our Event Videos page:
- March 2, 2022 - Alcohol Biomarker Update Workshop,
Featuring: Dr. Judy Hahn, UCSF ; Dr. Julianne Jett, Washington State University ; Dr. Yan Wang, University of Florida
- Workshop announcement
- Alcohol Biomarker Workshop Part 1. Discover current Alcohol Biomarkers options for research and new Alcohol Biomarkers in development feat. Dr. Judy Hahn, UCSF
- Alcohol Biomarker Workshop Part 2. Biomarkers options for research. Learn about in-the-field 'Use Cases' of Transdermal Biosensors, Urine Alcohol Metabolites, and Remote Blood Collection for PEth. feat. Dr. Julianne Jett, & Dr. Yan Wang
- Alcohol Biomarker Workshop Part 3. Q & A Session. Discuss and get your Alcohol Biomarker questions answered. Feat. Dr. Judy Hahn, Julianne Jett, & Dr. Yan Wang
- January 11, 2022 - Anna Hotton, PhD, University of Chicago: "Understanding Socio-Structural Drivers of HIV Transmission Using Epidemiology and Systems Science"
- December 14, 2021 - Rachel Brathwaite, PhD, Washington University in St. Louis. "Applying Machine Learning Techniques in Stata to Predict Health Outcomes Using HIV-related Data"
- November 10, 2021 - Jeetu Ganju, Ganju Clinical Trials, LLC, Independent Consultant | Ron Yu, Senior Director, Biostatistics, Gilead Sciences: "Evaluating benefit-risk, handling missing data and a universal sample size formula for clinical trials"
- May 11, 2021 - Steve Gregorich, PhD; UCSF: "Simplified power analyses for clustered sampling designs...Sample size ratios (SSR)"
- April 13, 2021 - Steve Gregorich, PhD; UCSF: "Introduction to SAS PROC VARCLUS: A (mostly) superior alternative to EFA"
- March 2, 2021 - Steve Gregorich, PhD; UCSF: "Introduction to exploratory factor analysis (EFA)"
- December 17, 2020 - Steve Gregorich, PhD; UCSF: "Diagnosing and
Accommodating Pandemic Effects on Ongoing Research" - November 17, 2020 - CAPS/PRC Town Hall presents: Data Analysis Considerations for Studies Spanning the Pre-COVID and During-COVID Eras;
Panelists: Tor Neilands, PhD, Steve Gregorich, PhD, and Charles McCulloch, PhD- Town Hall announcement
- Part 3a. Gregorich COVID Analysis Challenges -- Please go to the December 17 seminar above
- Part 3b. Neilands COVID Analysis Challenges Examples V9_LC_corrected_tab
- The audio was not recorded in November, but here’s a link to a recording of a reprise of the talk given at NYU in 2021 -- Recording
- Part 3c. McCulloch Analytical issues to accommodate pandemic disruptions V4
- Part 3c. McCulloch -- Recording
- November 6, 2020 - Diane Santa Maria, DrPH & Nikhil Padhye, PhD: "Real World Utilization of Just-in-Time Adaptive Interventions for Risk Prevention Among Youth Experiencing Homelessness: From Implementation to Evaluation"
- January 28, 2020 - Michael Schembri; UCSF: "Better Data Capture Solutions with Medrio"
- October 8, 2019 - Lila A. Sheira, MPH; UCSF: "Using REDCap Mobile: Practical suggestions for remote data collection"
- September 24, 2019 - John Sauceda, PhD, MSc; UCSF: "Intro to the Multiphase Optimization Strategy (MOST) Framework for Intervention Science"
- May 21, 2019 - Maya Petersen, MD, PhD;UC Berkeley: "Targeted Maximum Likelihood Estimation, integrating machine-learning, to evaluate the effects of longitudinal interventions including dynamic regimes"
- May 7, 2019 - Julia Adler-Milstein, PhD; UCSF: "Exploring UCSF’s Electronic Health Record Data:Turning Digital Fumes into a Breath of Fresh Air"
- April 30, 2019 - Lilian Brown, MD, PhD; UCSF: "Social network analysis and engagement in care among HIV-infected youth in East Africa"
- April 23, 2019 - Michael Duke, PhD; UC Berkeley: "Considerations around analyzing, writing up and publishing mixed methods research"
- February 7, 2019 - Colin Welsh, MD, MA; Vanderbilt U: "Machine Learning to Catalyze Mental Health: From suicide prediction to treatment resistance and large scale phenotyping"
- Seminar announcement
- Video [within UCSF]
- October 23, 2018 - Steve Gregorich, UCSF: "Controversies and Unresolved Issues in the Design of Randomized Controlled Trials Testing Clinical/Behavioral Interventions"
- Seminar announcement
- [Apologies for the less-than-optimal quality of the recordings]
- Part 1 slides [Control Group Design]
- Part 1 video
- Part 2 slides [Multiple Testing]
- Part 2 video
- Part 3 slides (updated) [Pilot RCT]
- Part 3 video
- August 29, 2018 -- William Santo, UCSF: "Automating Tasks with the Redcap API"
- August 28, 2018 -- Samantha Dilworth and Deepalika Chakravarty, UCSF: "To ‘Qualtrics’ or to ‘REDCap’? That is the question…"
- February 6, 2018 - Ida Sim, MD, PhD (UCSF): Mobile apps and sensors to improve health and manage disease for populations and individuals interventions for marginalized populations
- December 5, 2017 - Naihua Duan (Columbia University) and Richard Kravitz (UC Davis): ASA-sponsored webinar: "Small Data, N-of-1 Trials, and Personalized Medicine"
- November 27, 2017 - Carl Latkin, PhD: Interactive workshop in developing and tailoring social network instruments and social network behavior change interventions for marginalized population
- April 20, 2017 - Bengt Muthen, Tihomir Asparouhov, and Ellen Hamaker: ASA-sponsored webinar: Intensive Longitudinal Data Analysis Using Mplus
- March 7, 2017 - David Benkeser, PhD: Optimally Combining Outcomes To Improve Prediction
- January 20, 2017 - Carl A. Latkin, PhD: Randomized clinical trials of social network approaches to HIV prevention and care: Lessons learned
- May 17, 2016 — John A. Schneider MD, MPH, PhD: Social Network Data Collection Approaches and Strategies for Introductory Analysis and Intervention Planning
- May 3, 2016 — Tor Neilands, PhD, Kim Koester, MA & Troy Wood, MA: An Introduction to Survey Scale Development and Cognitive Interviewing
- April 19-20, 2016 — Blair Johnson, PhD & Tania Huedo-Medina, PhD: Meta-Analysis workshop
- Mar 11, 2016 – Jitendra Ganju, PhD: Making Clinical Trial Results Robust
- Feb 19, 2016 — Mike Speed, SAS Institute: Variable Selection and Miner Enterprise
- Jan 19, 2016 – Steve Gregorich, PhD: Introduction to the Interrupted Times Series Design
- Dec 11, 2015 — Estie Hudes, PhD MPH: Report back from the 2015 North American Stata Conference
- Nov 17, 2015 - Wenjing Zheng, PhD: Adaptive Trial Designs.
- Sept 8, 2015 - Lucy Popova, PhD: Randomized Behavioral Clinical Trials: 10 Lessons I Learned from the NIH Summer Institute
- May 19, 2015 – Dr. Inbal Nahum-Shani & Nicholas Seewald : SMART Workshop
- Apr 17, 2015 — Lance Pollack, PhD: “Issues in Surveys of Sexual Behavior: Problems with the Samples, the Questions, the Answers, and Whether Frisky Really Means Risky”
- Mar 24, 2015 – Andrew Curtis, PhD: “Mapping the Impossible: Geospatial Approaches for Challenging Environments“
- Feb 27, 2015 – Tor Neilands, PhD and Estie Hudes, PhD MPH: “Handling Missing Data, Part 2″
- Feb 13, 2015 – Tor Neilands, PhD and Estie Hudes, PhD MPH: “Handling Missing Data, Part 1″
- Jan 16, 2015 — Tor Neilands, PhD and Eric Vittinghoff, PhD: “Sample size and power calculations for joint testing of indirect effects”
- December 12, 2014: Johannes Thrul , PhD: “Using participants’ own mobile phones for Ecological Momentary Assessment – insights from a study with young adult smokers”
- September 19, 2014 — Estie Hudes, PhD MPH: “Report Back from the 2014 Stata Conference in Boston”
- May 15, 2014: Steve Gregorich, PhD: “Power Analysis for Logistic Regression Models Fit to Clustered Data: Choosing the Right Rho”
- April 18, 2014: Lance Pollack, PhD: Conversational Interviewing vs. Standardized Interviewing: Initial Quantitative Findings from an Experiment Using a Sexual Behavior Assessment of MSM
- February 21, 2014 – Ann Lazar, PhD : ”The Johnson-Neyman technique for clustered data”
- January 14, 2014: Tor Neilands, PhD & Estie Hudes, PhD, MPH: “Handling Missing Data, Part 2”
- Seminar Announcement
- Slides
- Example 1 do file; Ex 1 log; TracePlot_1;TracePlot_2; MIDiagPlot_1; MIDiagPlot_2
- Example 2 do file; Ex 2 log; TracePlot_1; TracePlot_2; MIDiagPlot_3;
- g1_1_extrindxg; g1_1_ntwrksmk; g1_1_smokdays;
- extrindx_15_75_kd; ntwrksmk_15_75_kd; smokdays_15_75_kd
- Video recording (limited time)
- December 3, 2013 –Tor Neilands, PhD & Estie Hudes, PhD, MPH: “Handling Missing Data, Part 1”
- November 15, 2013 — Stephanie Sapp, MA, PhD candidate and Meghan Morris, PhD MPH: “Spontaneous HCV Clearance in IDU: Estimating Variable Importance Measures with Interval Censored Outcomes”
- November 7, 2013 — John Boscardin, PhD: Optimism of Best Subset Selection by AIC/BIC for Prognostic Model Building
- Seminar announcement
- Slides
- Video Recording (link available until 11/21/13)
- Video File available from estie dot hudes at ucsf dot edu
- October 2013: Susan Murphy, PhD: “SMART Study Designs for Developing Adaptive Interventions”
- Seminar Announcement
- Slides
- Video File available from estie dot hudes at ucsf dot edu
- September 2013 – Ali Mirzazadeh, MD PhD MPH: “Network Scale-Up to Estimate the Population Size of High-Risk Groups for HIV”
- April 2013 – Steve Gregorich, PhD: Models of binary outcomes with 3-level data: A comparison of some options within SAS
- February 2013 — Journal Club: “Multiple Imputations using Chained Equations (MICE)”. Moderated by Tor Neilands, PhD & Estie Hudes, PhD, MPH
- January 2013 – Handling Missing Data, Part II:Tor Neilands, PhD & Estie Hudes, PhD, MPH
- December 2012 – Handling Missing Data, Part I:Tor Neilands, PhD & Estie Hudes, PhD, MPH
- November 2012 — Causal Inference in HIV Research: Sherry Rose, PhD, and Elise Riley, PhD
- September-October 2012 — 4-session worshop on Repeated Measures Analysis using Stata: Charles McCulloch, PhD (joint presentations with TAPS)
- May 2012 — Use Exploratory Factor Analysis Oblique Principal Component Cluster Analysis to Uncover the Underlying Structure of Self-Report Instruments: Steve Gregorich, PhD
- April 2012 — Strengthening Causal Inference in HIV Prevention Studies: Introduction and Practical Examples:Drs. Carol Camlin, Mi-Suk Kang Dufour, Sheri Lippman, and Starley Shade
- March 2012 — Using Time-Location Sampling to Identify and Recruit High-Risk MSM: Lance Pollack, PhD
- Seminar announcement
- Materials to be added after publication
- February 2012 — Mediation for the 21st Century: Ross Boylan, PhD
- January 2012 — SAS 9.3 Enhancements for Statistical Analysis: Tor Neielands, PhD
- December 2011 — Report back from the Stata Conference, Chicago 2011: Estie Hudes, PhD, MPH
- November 2011 — Design and Sample-Size Issues for Cluster-Randomized Trials: Can We Do Better Than Hand-Waving?: Edwin Charlebois, PhD, MPH
- Seminar announcement
- Presentation video
- Slides (in 8 sections)
- CRT references and links to program
- October 2011 — Introduction to Social Network Analysis: Theory and Methods: George A. Barnet, PhD
- September 2011 — Comparing odds ratios across nested logistic regression models: Steve Gregorich, PhD
- May 2011 — Journal Club: Standard of Statistical Evidence–Are We Drawing the Right Conclusions from the Statistics We Employ? Moderated by Drs. Wayne Steward and Estie Hudes
- Reading materials: bem2011, bem2011comments)
- April 2011 — An Approach to Minimizing Problematic Data in an ACASI Sexual Behavior Assessment: Lance Pollack, PhD
- March 2011 — Sex, Drugs, and HIV—Decomposing Network Contributions of Different Risk Behaviors: Jimi Adams, PhD
- January 2011 — Cognitive Interviewing
- How Cognitive Interviewing Works: Johnny Blair, Abt. Associates
- A Conversation about Conversational Interviewing: Frederick Conrad, PhD, University of Michigan
- December 2010 — The iPrEx Study: Chemoprophylaxis for HIV Infection: Dave Glidden, PhD, Professor, Division of Biostatistics
- New England Journal of Medicine article: Preexposure Chemoprophylaxis for HIV Prevention in Men Who Have Sex with Men (Note: this article is available for free only during the month of December 2010.)
- November 2010 — Handling X-side Missing Data with Mplus: Tor Neilands, PhD
- PDF of the Mplus outputs, which contain the Mplus input file information and corresponding output for all 4 examples discussed in the slides (Warning: this is a very long file)
- usnews.dta: Stata version of the Paul Allison USNews data set used in the first example
- usnews.txt: ASCII version of the USNews data set
- usnews_Mplus_Models.do: Stata.do file version of the 4 Allison Mplus examples
- Allison_Example_Stata-to-Mplus.log: Log file of Stata version of the 4 Allison Mplus linear regression examples
- Hoff_Mplus_Models.do: Stata.do file version of the 2 Hoff Mplus examples
- Hoff_Example_Stata-to-Mplus.log: Log file of Stata version of the 2 Hoff clustered logistic regression examples
- October 2010 — Introduction to Structural Equation Modeling/Causal Inference Methods: Maya Petersen, PhD, MD, Assistant Professor of Biostatistics and Epidemiology, UC Berkeley
- Slides: Application of Causal Inference Methods to Improve Treatment of HIV in Resource‐Limited Settings(PDF 2,318 KB)
- Video
- May 2010 — Medication Adherence
- Medication Adherence: Tailoring the Analysis to the Data: Parya Saberi
- Log-Gamma Modeling of HIV Medication Adherence Data Using SAS: Tor Neilands
- PDF of slides
- Janet Tooze mixcorr SAS macro program to fit the zero-inflated log-gamma with random intercepts model
- Tooze article that provides the statistical background for the macro
- PDF of Dale McLerran post to SAS-L listserv
- SAS programs used to analyze the HLP and Balance data
- April 2010 — Journal Club: Discussion of an article by Meng in the American Statistician.
- February 2010 — On Double Sampling Designs for Dropouts: Dave Glidden, PhD
- January 2010 — New Features in Stata 11 Estie Hudes, PhD, MPH: More about mi/What’s New 10 to 11/Stata goodies Tor Neilands, PhD: The mi command for Multiple Imputations Lance Pollack, PhD: Factor Variables Starley Shade, PHD, MPH: The margin command
- Materials from the presentations (Zip file)
- December 2009 — Statistical CSI: An attempt to detect fraud in papers published from a medical biochemistry department by Mark Hudes, PhD
- November 2009 — Searching for Latent Patterns in Longitudinal Data: How Well Do Latent Growth Mixture Models Work? by Kevin Delucchi , PhD
- October 2009 — Application of Growth Mixture Models to Explore Multiple Developmental Trajectories by Christy Boscardin, PhD
- September 2009 — Report back from the August 2009 Stata Conference in Washington DC by Estie Hudes, PhD, MPH
- Link to the Stata Conference DC 2009: http://www.stata.com/meeting/dcconf09/
- July 2009 — Introduction to probability sampling: concepts, practices, and pitfalls by Johnny Blair
- May 2009 — Adaptive Clinical Trial Designs: Changing the Population Sampled in Response to Already Accrued Data by Michael Rosenblum, PhD
- April 2009 — Probability Sampling in a Bathhouse Setting: Purpose, Practice, and Practicality by Paul Cotten
- March 2009 — Mediation Models with Binary Outcomes and/or Binary Mediators by Steve Gregorich
- February 2009 — Long-term treatment effects from a short-term RCT with a long-term, treatment-only extension by Eric Vittinghoff, PhD, MPH
- January 2009 — Causal Inference Issues in Randomized HIV Prevention Studies by David Glidden, PhD
- September 2008 — StudyTRAX software and its new features demonstration by John Putzke, PhD, MSPH
- June 2008 — Can Nonrandomized Experiments Yield Accurate Answers? A Randomized Experiment Comparing Random to Nonrandom Assignment by Dr. William Shadish
- April 2008 — Basics of Interim Analysis by Dr. Dave Glidden
- March 2008 — Prediction of random effects and effects of misspecification of their distributions by Dr. Charles McCulloch
- February 2008 — Using Regression to Analyze Randomized Trials: Valid Hypothesis Tests Despite Incorrectly Specified Models by Dr. Michael Rosenblum
- January 2008 — Repeated measures models with multiple, correlated random effects by Dr. Steve Gregorich
- November 2007 — The Bathwater Has No Baby, and the Clothes Have No Emperor: Coming to Terms with Self-Responsibility in Science and in Real Life by Dr. Mike Acree
- October 2007 — Respondent-Driven Sampling by Dr. Matthew Salganik
- An introduction to respondent-driven sampling: presentation and article
- Respondent-Driven Sampling as Markov Chain Monte Carlo: presentationand article
- September 2007 — Designing Effective Questionnaires: An Exploration of the Psychology of Question-Answering by Dr. Jon Krosnick
- June 2007 — Statistical Mediation Analysis by Dr. David MacKinnon
- May 2007 — Multiple Events in Applications: Ventilator-Free Days in Critical Care by Dr. David Glidden
- April 2007 — Enhancement of data management and epidemiological skills: analysis of the effects of hormonal contraception on the natural history of HIV-1-infected women in Nairobi and Zimbabwe by Christina Mwachari, MD
- March 2007 — Handling Missing Data by Tor Neilands and Estie Hudes
- February 2007 — Structural Equation Modeling Software Capabilities of General Interest
- January 2007 — The Tribulations of a Trial: Design Dilemmas in Testing the Efficacy of a Community-Level HIV Prevention Intervention for Young Black MSM by Susan M. Kegeles, Greg Rebchook, John Peterson, and Dave Huebner