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Elana Simon

dblp:329/4448 · DBLP profile ↗
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1ranked-venue papers
0as first author
1since 2021 · last 2024
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Artificial intelligence and machine learning · 1 · 1 since 2021

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Medical and health informatics · 100%
Databases, data mining, and information retrieval
1 paper
Data integration and cleaning · 100%
Artificial intelligence
1 paper
Knowledge representation and reasoning · 100%

Topics — the 2 heaviest of 3, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Data integration and cleaning
data curation
0.812024
UniTox: Leveraging LLMs to Curate a Unified Dataset of Drug-Induced Toxicity from FDA Labels · NeurIPS 2024
Knowledge, reasoning and agents › Knowledge representation and reasoning › knowledge acquisition › knowledge extraction
LLM-based information extraction
0.212024
UniTox: Leveraging LLMs to Curate a Unified Dataset of Drug-Induced Toxicity from FDA Labels · NeurIPS 2024

Methods — techniques the papers use, named apart from their topics

machine learning models · 2.3GPT-4o · 2.3
YearPublicationVenuePosition
2024 UniTox: Leveraging LLMs to Curate a Unified Dataset of Drug-Induced Toxicity from FDA Labels
abstract
Drug-induced toxicity is one of the leading reasons new drugs fail clinical trials. Machine learning models that predict drug toxicity from molecular structure could help researchers prioritize less toxic drug candidates. However, current toxicity datasets are typically small and limited to a single organ system (e.g., cardio, renal, or liver). Creating these datasets often involved time-intensive expert curation by parsing drug labelling documents that can exceed 100 pages per drug. Here, we introduce UniTox, a unified dataset of 2,418 FDA-approved drugs with drug-induced toxicity summaries and ratings created by using GPT-4o to process FDA drug labels. UniTox spans eight types of toxicity: cardiotoxicity, liver toxicity, renal toxicity, pulmonary toxicity, hematological toxicity, dermatological toxicity, ototoxicity, and infertility. This is, to the best of our knowledge, the largest such systematic human in vivo database by number of drugs and toxicities, and the first covering nearly all non-combination FDA-approved medications for several of these toxicities. We recruited clinicians to validate a random sample of our GPT-4o annotated toxicities, and UniTox's toxicity ratings concord with clinician labelers 85-96\% of the time. Finally, we benchmark several machine learning models trained on UniTox to demonstrate the utility of this dataset for building molecular toxicity prediction models.
Jacob Silberg, Kyle Swanson, Elana Simon, Angela Zhang, Zaniar Ghazizadeh, Scott Ogden, Hisham Hamadeh, James Zou 0001
NeurIPS3