iiinova — where your digital self keeps evolving

Reposted by B. Arman Aksoy

Sander Wuyts, PhD 🧬 @swuyts.bsky.social · 28/10/2025

Among many things, in this episode we discuss: - Obsidian's lead program, OBX-115, a modified TIL cell therapy - The critical role of TCR sequencing in profiling infusion products, tracking clonotypes, and identifying biomarkers for therapy response. Listen/View here: youtu.be/J41q0fUqeVo?...

youtu.be

The Repertoire Room: Episode 3 - Arman Aksoy (Obsidian Therapeutics)

YouTube video by ImmuneWatch

111

B. Arman Aksoy @armanaksoy.bsky.social · 14/10/2025

For those of you who are trying to digest the recently released ESMO 2025 abstracts, abstract.plus now runs a web tool that helps you filter/annotate abstracts with a few clicks.

110

B. Arman Aksoy @armanaksoy.bsky.social · 11/07/2025

Inspired by fastapi-mcp package, I (vibe-) coded {plumber2mcp}, a simple package to help add MCP support to a {plumber} API: #rstats pr('plumber.R') %>% pr_mcp(transport='stdio') %>% pr_run(port = 8000) Supports HTTP/STDIO, tool/resource definitions, and schemas

150

B. Arman Aksoy @armanaksoy.bsky.social · 28/05/2025

It is so hard to browse, narrow, and annotate big conference (e.g. #ASCO25) abstracts using their original web sites. For the last 1.5 years, I have been experimenting with an AI-assisted way to consume these materials. I finally was able to combine my scripts into a single web application.

100

B. Arman Aksoy @armanaksoy.bsky.social · 05/12/2024

AlphaFold folks: is there a place where I can batch download MSAs (.a3m files) of the human proteome? Re-running mmseq2 on all the human proteins sounds like it would be a waste of time/resources?

131

B. Arman Aksoy @armanaksoy.bsky.social · 09/11/2023

For those of you who want to play with an HGNC-savvy GPT for mundane gene ID mapping/look-up tasks, I present you Hugo the GPT: chat.openai.com/g/g-E7GrLSwn...

240

B. Arman Aksoy @armanaksoy.bsky.social · 31/10/2023

#AppleEvent 👏 Biomedical researchers 👏QuPath 👏 MinKNOW 👏

010