OpenScholar Synthesizes Scientific Literature and Reduces Hallucitations
An open-source small AI model from Allen Institute beats previous-generation frontier models in literature review and synthesis, and reduces hallucinated citations...
Five Things (May 23, 2026): AI in life sciences
Jassi Pannu on AI and biosecurity, RAND/Helena AIxBio biosecurity mitigations, Blekhman on genomics AI, Nature’s AI scientists week, AI in peer review....
Batch Effect: To Correct or Not for Bulk RNA-seq Data
<p>A colleague sent me a PCA plot last week. Three replicates per condition, control vs KO of a gene. PC1 cleanly separated replicate 1 from replicate 2 from replicate 3. PC2 separated control vs KO. ...
Pawsitively prehistoric
First described from Laos in 2005, the Laotian rock rat Laonastes aenigmamus quickly gained fame as one of the most remarkable “living fossil” discoveries in modern mammalogy. A. Abramov (Zoological I...
Biology is Messy, Because Physicists Failed
<p>I came across an interesting blog post titled <a href="https://gptomics.com/blog/biology_is_messy.html#fn:7">Biology is Messy</a>. The main argument is that biology is not built on top of reduction...
Mathematical Side of AI and Its Applications in Biology
<p>Right now everyone is either enamored of or is completely turned off by AI. Speaking of being fed up, please check the students at University of Florida booing <a href="https://www.youtube.com/shor...
London Calling 2026 Preview
My series on Craig Venter is on a small pause since I didn't get it out before I arrived here in London for Oxford Nanopore's annual shindig at Old Billingsgate. On the plus side (well, I hope my rea...
ctrlvee: Extract external R code and insert inline
Fetch R code from an external source and insert it directly in an editor. Built as an add-in for integrating with Positron and RStudio....
Gene Regulatory Network Reconstruction with Single-cell Data
<p>On the subject of reconstructing gene regulatory networks (GRNs) from RNAseq and scRNAseq data, I am working through a number of review papers and the techniques described therein.</p> <ol> <li>...
Personal Reflections on Craig Venter: Expressed Sequence Tags
<div>Venter's big Expressed Sequence Tag - soon known as ESTs -Â paper came out in June during my final summer as an intern; I photocopied it at my internship. I looked it up, and it had only a bit ov...