Archive for the 'SciLit' Category

A Unification of Mediator, Confounder, and Collider Effects – PMC

August 31, 2024

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8967310/

MacKinnon, D. P., & Lamp, S. J. (2021). A unification of mediator, confounder, and collider effects. Prevention Science, 22(8), 1185–1193. https://doi.org/10.1007/s11121-021-01268-xMacKinnon, D. P., & Lamp, S. J. (2021). A unification of mediator, confounder, and collider effects. Prevention Science, 22(8), 1185–1193.
https://doi.org/10.1007/s11121-021-01268-x

QT:{{”
Third-variable effects are not distinguishable solely by statistical methods. Each third-variable effect can be fit to the same data, and if the relations between the variables are substantial, there will be evidence for each effect. In this sense, the confounder, mediator, and collider models are equivalent, providing an equal representation of the information contained in the data for three variables (Stelzl, 1986). Although mediation, confounding, and collision may equally explain the statistical associations among three variables, they describe different causal relations among those variables. Like much recent research on causal analysis, this paper highlights the centrality of the causal model underlying a research study and the important distinction between the causal model and the statistical model. The appropriate causal model is determined by prior empirical research and theory. The statistical analysis provides estimates for the proposed causal model.
“}}

Review: Computational methods for allele-specific expression in single cells

August 17, 2024

https://www.sciencedirect.com/science/article/pii/S0168952524001690?via%3Dihub

2302.04265 PFGM++: Unlocking the Potential of Physics-Inspired Generative Models

August 11, 2024

https://arxiv.org/abs/2302.04265

thought this was interesting

Xu, Y., Liu, Z., Tian, Y., Tong, S., Tegmark, M., & Jaakkola, T. (2023, February 8). PFGM++: Unlocking the potential of
Physics-Inspired Generative Models. arXiv.org.
https://arxiv.org/abs/2302.04265

Detecting hallucinations in large language models using semantic entropy | Nature

August 11, 2024

https://www.nature.com/articles/s41586-024-07421-0

Farquhar, S., Kossen, J., Kuhn, L., & Gal, Y. (2024). Detecting hallucinations in large language models using semantic entropy. Nature, 630(8017), 625–630. https://doi.org/10.1038/s41586-024-07421-0

CATHe: detection of remote homologues for CATH superfamilies using embeddings from protein language models | Bioinformatics | Oxford Academic

July 28, 2024

Nallapareddy, V., Bordin, N., Sillitoe, I., Heinzinger, M., Littmann, M., Waman, V. P., Sen, N., Rost, B., & Orengo, C. (2023). CATHe: detection of remote homologues for CATH superfamilies using embeddings from protein language models. Bioinformatics, 39(1).
https://doi.org/10.1093/bioinformatics/btad029

https://academic.oup.com/bioinformatics/article/39/1/btad029/6989624

Single-cell multiregion dissection of Alzheimer’s disease | Nature

July 24, 2024

https://www.nature.com/articles/s41586-024-07606-7

Induction of social contagion for diverse outcomes in structured experiments in isolated villages | Science

May 3, 2024

https://www.science.org/doi/10.1126/science.adi5147

Honduras !

Genetic predisposition, modifiable lifestyles, and their joint effects on human lifespan: evidence from multiple cohort studies | BMJ Evidence-Based Medicine

April 30, 2024

https://ebm.bmj.com/content/early/2024/04/16/bmjebm-2023-112583

QT:{{”
Interesting that “alcohol consumption” didn’t rank in the study’s “top 4” lifestyle features. Wonder if this is because it potentially overlaps somewhat with two of the other features (diet & body shape). “}}

Genetic predisposition, modifiable lifestyles, and their joint effects on human lifespan: evidence from multiple cohort studies FREE

http://orcid.org/0000-0002-2628-7535Zilong Bian1,2, Lijuan Wang1,3, Rong Fan1,2, Jing Sun1, Lili Yu1, Meihong Xu4, Paul R H J Timmers3,5, Xia Shen6, James F Wilson3,5, Evropi Theodoratou3,7, Xifeng Wu1,8, Xue Li1,3

2403.05881 KG-Rank: Enhancing Large Language Models for Medical QA with Knowledge Graphs and Ranking Techniques

April 21, 2024

https://arxiv.org/abs/2403.05881

https://www.nature.com/articles/s41598-024-55742-x

April 7, 2024

Parada-Cabaleiro, E., Mayerl, M., Brandl, S., Skowron, M., Schedl, M., Lex, E., & Zangerle, E. (2024). Song lyrics have become simpler and more repetitive over the last five decades. Scientific Reports (Nature Publishing Group), 14(1). https://doi.org/10.1038/s41598-024-55742-x