Scott D. Boyd

Oct 29, 2024 | biorxiv.org | Chiho Im |Ryan Zhao |Scott D. Boyd |Anshul Kundaje

AbstractUnderstanding T-Cell receptor (TCR) and epitope interactions is critical for advancing ourknowledge of the human immune system. Traditional approaches that use sequence similarity or structure data often struggle to scale and generalize across diverse TCR/epitope interactions. To address these limitations, we introduce ImmuneCLIP, a contrastive fine-tuning method that leverages pre-trained protein language models to align TCR and epitope embeddings in a shared latent space.

Jul 9, 2024 | bozemandailychronicle.com | Scott D. Boyd

There are numerous public comments opposing the proposed Guthrie development and more importantly, the deep incentives of Bozeman’s Affordable Housing Ordinance (AHO). The protests are focused on how the tradeoffs of the deep incentives benefit the developers but do not fulfill their intended purpose of providing affordable housing while also negatively impacting the affected neighborhoods. The city should immediately impose a moratorium and repeal the deep incentives altogether.

May 24, 2023 | nature.com | Prabhu S Arunachalam |Thomas Hagan |Yupeng Feng |Florian Wimmers |Venkata Viswanadh Edara |Alexandra Lee | +8 more

Addendum to: Nature https://doi.org/10.1038/s41586-021-03791-x Published online 12 July 2021Since the publication of our original article, we have been alerted to a discrepancy between the expression of sex-specific genes in the cellular indexing of transcriptomes and epitopes by sequencing (CITE-seq) and bulk transcriptomics datasets and the reported gender of the subjects, whose transcriptomes were analysed in these datasets.