Health Language Processing Annual Symposium & R01AI164481 SARS-CoV-2 Project Meeting Agenda

October 23-27, 2023 Cedars-Sinai Medical Center Pacific Design Center – West Hollywood, CA

Health Language Processing Annual Symposium

Monday, October 23, 2023

Time	Topic	Speaker
10:00 – 10:20	Introduction HLP Lab – NLP Research using Clinical Notes	Dr. Graciela Gonzalez-Hernandez Vice Chair Research and Education, CBM Cedars-Sinai Medical Center
10:20 – 11:05	Session 1 – Empowering Biomedicine: Unlocking the Potential of Large Language Models for Biomedical Data Introduction of language model How to train the language model in terms of neural network and the large amount of data? word embeddings (CBOW or Skipgram training strategy) pretrained masked language model such as BERT (masked language model) generative language model (T5, GPT2-3) (predict next tokens) Questions and Discussion	Dr. Davy Weissenbacher, Research Data Scientist, Lead Hernandez-Gonzalez Health Language Processing Lab Cedars-Sinai Medical Center
11:05 – 11:15	Break
11:15 – 12:00	Session 2 – Empowering Biomedicine: Unlocking the Potential of Large Language Models for Biomedical Data Introduction to the large language model Knowledge discovery from clinical notes using LLMs Recent application examples hands-on experience using a Jupyter notebook Questions and Discussion	Dr. Dongfang Xu, Research Data Scientist Hernandez-Gonzalez Health Language Processing Lab Cedars-Sinai Medical Center
12:00 – 1:00	Lunch
1:00 – 5:00	Session 3 (Closed Session) Meetings with clinical collaborators (by invitation). Planning and Grant Development

Tuesday, October 24, 2023

Time	Topic	Speaker
10:00 – 10:20	Introduction HLP Lab – NLP research on Literature	Dr. Graciela Gonzalez-Hernandez Vice Chair for Research and Education Cedars-Sinai Medical Center
10:20 – 11:05	Session 1 – Can systematic reviews be automated? Workflow using currently available tools Automation vs Manual Summary of tools available Adoption of tools in real world Gaps in what’s needed Future Research building better tools focused on identifying and incorporating adverse events in systematic reviews Questions and Discussion	Dr Su Golder, Associate Professor, Health Services and Policy Research, Department of Health Sciences. University of York, York, UK
11:05 – 11:15	Break
11:15 – 12:00	Session 2 – Creating an annotated corpus of literature Introduction to annotation Specific challenges of literature Selecting an annotation tool Development of schema and training Hand-on demonstration using the Inception annotation tool Annotated Data for LLMs Questions and Discussion	Karen O’Connor, Senior Data Analyst University of Pennsylvania
12:00 – 1:00	Lunch
1:00 – 5:00	Session 3 (Closed Session) Meetings with collaborators (by invitation). Planning and Grant Development

Wednesday, October 25, 2023

Time	Topic	Speaker
10:00 – 10:20	Introduction HLP Lab – NLP research using Social Media Data	Graciela Gonzalez-Hernandez Vice Chair for Research and Education Cedars-Sinai Medical Center
10:20 – 11:05	Session 1 – BERTopic Introduction to topic modeling Application on Social Media data LDA vs BERTopic Hands-on tutorial using BERTopic Questions and Discussion	Yunwen Wang, Postdoctoral Researcher Cedars-Sinai Medical Center
11:05 – 11:15	Break
11:15 – 12:00	Session 2 – Cohort Studies with Social Media Data A cohort study of COVID-19 in pregnancy Motivating the use of social media Identifying a cohort Identifying exposed and unexposed groups Identifying outcomes and covariates Addressing potential biases of social media Questions and Discussion	Ari Klein, Senior Data Analyst University of Pennsylvania
12:00 – 1:00	Lunch
1:00 – 5:00	Session 3 (Closed Session) Meetings with collaborators (by invitation). Planning and Grant Development

R01AI164481 SARS-CoV-2 Project Meeting Thursday, October 26, 2023

Time	Topic	Speaker
10:00 – 12:00	SARS-CoV-2 Team Building Activity (by invitation)
12:00 – 1:00	Lunch
1:00 – 5:00	Current Project Planning Session (by invitation) Manuscript planning Systems development and annotation needs

Friday, October 27, 2023

Time	Topic	Presenter
10:00 – 12:00	SARS-CoV-2 Future Project Plans Renewal Submission Planning and Writing Brainstorming on Aims
12:00 – 1:00	Lunch
1:00 – 5:00	SARS-CoV-2 Future Project Plans (cont) Renewal Submission Planning and Writing Development of Specific Aims

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