Nathan Keith
@GeNateics
Postdoc @ Indiana University in Joe Shaw Lab | Machine Learning and Evolutionary Functional Genomics
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Lol
Bengals defensive coordinator Al Golden on linebackers Barrett Carter and Demetrius Knight II: We've been giving them more over the last three games at the line of scrimmage. And they've been responded. Golden said both rookies have really settled into their respective roles.
Excited for our new paper! We discovered cadmium-adapted genotypes in a mining region and through the use of a mutation-accumulation experiment we found that adaptation protects the germline genome from cadmium-induced mutations. Please feel free to add comments or suggestions.
Discovery and evaluation of cadmium-adapted Daphnia pulex genotypes in a region of historical mining reveals adaptation protects the ... biorxiv.org/content/10.110… #biorxiv_evobio
DupLoss-2: Improved Phylogenomic Species Tree Inference under Gene Duplication and Loss academic.oup.com/sysbio/advance… @systbiol
Interlocus gene conversion causes mosaic divergence in tandem paralogues - simulating HMA4 evolution in Arabidopsis halleri biorxiv.org/content/10.110… #biorxiv_evobio
Not happy. Censorship isn’t the way. I gave money to IU general fund for the IDS last year, so they could pay everyone and not run a deficit. I gave more than they asked for. I told them I’m happy to help because the IDS is important to kids at IU
IU previously directed the Indiana Daily Student to stop printing news coverage in our paper. Upon pushback, IU fully cut print, including our special editions. The IDS was not involved in the decision. Letter from the editors to come.
After firing a student media adviser, Indiana University is ending all printing of the Indiana Daily Student. While the IDS still publishes stories online, this will be the first time in 158 years that IU will be without a print newspaper. @WFIUWTIUNews ipm.org/news/2025-10-1…
Genetic background influences the effects of RNAi-by-feeding for DNA methyltransferases in Daphnia pulex. biorxiv.org/content/10.110… #biorxiv_genetic
New preprint on a surprising question - with a pangenome reference, *what is a genetic variant?* biorxiv.org/content/10.110… With Pouria Salehi Nowbandani, Shenghan Zhang, Haoyang Hu, and Heng Li @lh3lh3
New online! Experimental evolution in an era of molecular manipulation bit.ly/3IxyGbx
We observed that tRNA genes mutate like no tomorrow 👇
In this fascinating preprint, the authors uncover an eye-opening feature of tRNA genes: they’re insanely prone to mutation. Analyzing somatic mutations in cancer tissues, they report that tRNA genes are up to 9 times more mutated than protein-coding genes. Interestingly, the…
SVbyEye: A visual tool to characterize structural variation among whole-genome assemblies academic.oup.com/bioinformatics… 🧬🖥️🧪 github.com/daewoooo/SVbyE…
We're thrilled to introduce PromoterAI — a tool for accurately identifying promoter variants that impact gene expression. 🧵 (1/)
Three minutes of Jordan being completely unguardable in the post.
High rate of mutation and efficient removal by selection of structural variants from natural populations of Caenorhabditis elegans biorxiv.org/content/10.110… #biorxiv_genetic
Analysis of long-range contacts across cell types outlines a core sequence determinant of 3D genome organisation biorxiv.org/content/10.110… #biorxiv_genomic
Elevated rates and biased spectra of mutations in anaerobically cultured lactic acid bacteria biorxiv.org/content/10.110… #biorxiv_genetic
Evolution of cross-tolerance to metals in yeast biorxiv.org/content/10.110… #biorxiv_evobio
To learn in depth about UMAP + tSNE + PCA, please join my Instats seminar: Linear and Nonlinear Dimensionality Reduction instats.org/seminar/linear… on the 26th of February 2025
instats.org
Dimensionality Reduction with UMAP and Beyond - Livestreamed Research Training | Instats
PhD-level seminar on Dimensionality Reduction with UMAP and Beyond with Nikolay Oskolkov . Live Q&A plus on‑demand access. Join via your university’s Instats membership or enroll directly.
I’m happy to share my latest paper, with David Stern and colleagues, a genomic and evolutionary analysis of a novel toxin gene cluster in the harmful algal bloom-causing cyanobacterium Heteroscytonema crispum, published in GBE. (Link in next post)
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