2023-04-26 APR
Journal Club [deferred]
GeneGPT: Augmenting Large Language Models with Domain Tools for Improved Access to Biomedical Information
Qiao Jin, Yifan Yang, Qingyu Chen, Zhiyong Lu
National Library of Medicine, National Institutes of Health
University of Maryland, College Park
https://arxiv.org/pdf/2304.09667.pdf
Hackathon - GPT operation
GPT 1st month review
https://episphere.github.io/gpt
ChatML
Operating markup languages emerging
... markup languages tend to develop fast, they are driven by missing abstractions. Keep an eye on this one.
API's lacking
OpenAI ahead:
https://platform.openai.com/docs <-- devs start here
Contextualize documents
Yasmmin, Jeya, ...
Jeya: https://jeyabbalas.github.io/chat-pgs/
Yasmmin's test:
6. Evaluation and Rationale 6.1 Cancer in humans There is inadequate evidence in humans for the carcinogenicity of ortho -nitroanisole. 6.2 Cancer in experimental animals There is sufficient evidence in experimental animals for the carcinogenicity of ortho - nitroanisole. 6.3 Mechanistic evidence There is strong evidence that, in view of the metabolism of ortho -nitroanisole to the aromatic amine ortho-anisidine, ortho-nitroanisole belongs, based on mechanistic considerations, to a class of aromatic amines for which several members have been classified as carcinogenic to humans. There is also strong evidence that ortho-nitroanisole exhibits key characteristics of carcinogens in experimental systems.6.4 Overall evaluation ortho -Nitroanisole is probably carcinogenic to humans (Group 2A) . 6.5 Rationale The Group 2A evaluation is based on strong mechanistic evidence. In view of the metab - olism of ortho -nitroanisole to the aromatic amine ortho -anisidine, there is strong evidence that ortho -nitroanisole, based on mechanistic considerations, belongs to a class of aromatic amines for which several members have been classified as carcinogenic to humans. ortho-Nitroanisole exhibits concordance with aromatic amines with respect to the formation of common DNA-reactive moieties, genotoxicity, and target organs of carcinogenicity in chronic animal bioassays. There is also sufficient evidence of carcino - genicity in experimental animals, based on an increased incidence of malignant neoplasms in two species. In addition, there is strong evidence that ortho -nitroanisole exhibits key characteristics of carcinogens in experimental systems. ortho -Ni- troanisole is metabolically activated to elec - trophiles, it is genotoxic, and it also alters cell proliferation, cell death, or nutrient supply. The evidence on cancer in humans was inad  equate as no data were available.ortho -Nitroanisole
Ge, Aaron (NIH/NCI) [F]10:43 AM
GPT-4 Chatbot Guide: Mastering Embeddings and Personalized Knowledge Bases | by Ben Selleslagh | CodeX | Mar, 2023 | Medium
GPT-4 Chatbot Guide: Mastering Embeddings and Personalized Knowledge Bases
A guide on how to use the OpenAI embeddings endpoint to answer questions based on information you provide, such as company documentation or…
medium.com1 Like reaction.1Someone already did something similar. Here... by Ge, Aaron (NIH/NCI) [F]Ge, Aaron (NIH/NCI) [F]10:44 AM
Someone already did something similar. Here's an article about ityes aaron, i am trying to replicate it at s... by yasmmin (Guest)yasmmin (Guest)10:45 AMyes aaron, i am trying to replicate it at scale in javascript
Link https://jeyabbalas.github.io/chat-pgs/ by Balasubramanian, Jeya (NIH/NCI) [E]Balasubramanian, Jeya (NIH/NCI) [E]10:50 AM
https://jeyabbalas.github.io/chat-pgs/sk-aCl7RJ0DX6yZMRWZHyGdT3BlbkFJwvUDe5Hr13Uo... by Balasubramanian, Jeya (NIH/NCI) [E]Balasubramanian, Jeya (NIH/NCI) [E]10:51 AM
sk-aCl7RJ0DX6yZMRWZHyGdT3BlbkFJwvUDe5Hr13UolVaIlAPDLink https://pubmed.ncbi.nlm.nih.gov/305547... by Balasubramanian, Jeya (NIH/NCI) [E]Balasubramanian, Jeya (NIH/NCI) [E]10:52 AM
https://pubmed.ncbi.nlm.nih.gov/30554720/
Polygenic Risk Scores for Prediction of Breast Cancer and Breast Cancer Subtypes - PubMed
Stratification of women according to their risk of breast cancer based on polygenic risk scores (PRSs) could improve screening and prevention strategies. Our aim was to develop PRSs, optimized for ...
pubmed.ncbi.nlm.nih.gov
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