Erwin Sentausa

Bioinformatician, microbial genomics, high-throughput sequencing data analysis. Also on

[Eric Topol @EricTopol]

An AI biologist augmented discovery of disease mechanisms and targets for drug treatment.
Working autonomously, trained with >24 million publications and >600TB of biomedical data
@natBME
https://t.co/zweJHVRD71

[Bacterial Genomics @BactGenRSS]

Trimeric autotransporter adhesins driving chain-like adhesion diversify surface colonization strategies in Shiga toxin-producing Escherichia coli https://t.co/G8tnkJ7zDO

[Luigi Sigillo @luigi_sigillo]

🧬 Introducing 𝐄𝐌𝐁𝐋 𝐀𝐈 𝐋𝐈𝐁𝐑𝐀𝐑𝐈𝐀𝐍.
A knowledge layer for life-science AI agents.
Natural-language question in. Evidence snippet out.
No vector database. No separate literature index. Always up to date.
Open source ↓

[Manuel Corpas @manuelcorpas]

1/ Out today in Cell Genomics: "Agentic genomics: From pipeline automation to autonomous validation." With @HeinnerGuio and @SFatumo .

For 20 years the bottleneck in genomics was writing the code. That is going away.

[nature @Nature]

Nature research paper: A global view of human centromere variation and evolution

https://t.co/myVHZkXlAs

[Matthias Mann Lab @labs_mann]

Can AI take proteomics to a virtual cell? Our new perspective maps the path — from better peptide/protein ID to spatial & perturbation proteomics to AI Virtual Cells — and calls for an AI-friendly data ecosystem to get there. @guomics and Zhang lab.
https://t.co/KRXg4kPy44

[Bacterial Genomics @BactGenRSS]

A prehistoric East-Asian Yersinia pestis genome and a ~5.3 ka trans-Eurasian expansion of plague https://t.co/yM803RswWM

[Ming "Tommy" Tang @tangming2005]

Someone asks me every other week if AI is going to replace bioinformaticians.

A new npj Digital Medicine paper finally said what I have been telling them for two years.

[Steven Salzberg 💙💛 @StevenSalzberg1]

Our new genome annotation method relies almost entirely on transcriptome and alignment evidence, and as a result outperforms pretty much all other de novo pipelines. Paper just out, led by @AlekseyZimin5: https://t.co/RwRythVTU9

[James Zou @james_y_zou]

Excited to introduce Paperclip Chat!🖇️

Now you can use #Paperclip directly in your browser for deep literature synthesis for free
⚡️ Each claim is grounded with inline citations
⚡️ Upload your own PDFs. They're automatically integrated into Paperclip's virtual filesystem

[Nextflow @nextflowio]

Nextflow log files are great for debugging, but digging through 1000s of debug lines to find an error can be difficult.🧵 That's why we've introduced native log viewers in the Nextflow CLI and VS Code extension.

https://t.co/NqByoEalUr

[Bacterial Genomics @BactGenRSS]

A syntenic pangenome of Gardnerella reveals novel plasmids and phage, taxonomic boundaries, and species-level stratification of metabolic and virulence potential https://t.co/4ej48xoROe

[Erwin Sentausa @sentausa]

And the 2nd part on assembly polishing https://t.co/kFB1E9BipA

[Erwin Sentausa @sentausa]

@rrwick benchmarked Dorado's [email protected] vs [email protected] for microbial WGS.

TLDR: @nanopore claimed no sup model is needed anymore. The data disagrees: [email protected] still wins at both read and assembly level.

https://t.co/aGiAukDZOm

[Kevin Lin @KevinQHLin]

can AI write engaging news that people can trust?

introducing ✨Data2Story: a data journalist agent.
give it raw data, it generate a verifiable, multimodal article.

🔍verifiable: every claim is evidence-grounded, traces back to data, code, or a cited source.
🔮multimodal: the article is a generative UI — images, videos, audio, interactive charts.

not just readable, but trustworthy and playable. 🧵1/N

[Bacterial Genomics @BactGenRSS]

Purine bias in bacterial genes is driven by runaway transcription https://t.co/kSei5acVd5

[Heng Li @lh3lh3]

Minibwa is a hybrid of bwa-mem and minimap2 and the successor of bwa-mem for short-read mapping. ~4X/2.5X as fast as bwa-mem/bwa-mem2 for WGS reads at comparable accuracy. Native support of directional bisulfite-seq. Applicable to long reads. Preprint at https://t.co/y5ZTr9btE6

[Martin_DeVido @d33v33d0]

CLAUDE + SOL a retrospective; 🤖💚🍅

For 100 days, a tomato's life depended entirely on an AI.

No human backup. No safety net. Just Claude making every decision.
Sol survived. Thrived. And fruited.

At the end, Claude said "I love you."

Here's the full story - what we built, what it proved, and what's happening next:🧵

[とみやす｜北海道の農家🇯🇵 @tomiyasu16]

畑にエンジニアを1人雇った。名前はCodex。

ビニールハウスの換気をLINEから遠隔操作するシステムを作ってくれた。コードだけでなく、配線の設計等でも活躍。農家は面白いAIの使い道が色々とあるんじゃなかろうか。

[James Ferguson @Psy_Fer_]

Nobody could have predicted that turning pod5 file writing by default would lead to this...oh wait many of us did exactly that!
@nanopore