How does human genetics research live in the information ecosystem? Is it misused? Misrepresented? In my paper with @sramach.bsky.social, we tackle this question with 25 years of Wikipedia data, AI chatbot responses, and pages from Grokipedia www.biorxiv.org/content/10.6...

From Wikipedia to AI: Measuring 25 years of synthesis of human genetics research in the public-facing information ecosystem

Genetics research frequently intersects with ethnicity, nationality, and race, making it uniquely vulnerable to misrepresentation. Yet, 25 years after the initial sequencing of the human genome, there...

biorxiv.org

It's that time of the year again! Scott Kelley and I are organizing the @calstate.bsky.social bioinformatics webinar series this Fall, with a great lineup of bioinformatics talks from across academia and industry. Do join us! Noon Pacific on Friday's via Zoom: sdsu.zoom.us/j/88624423158

Just posted: a group paper describing major updates to my software pixy, for population genetic summary statistics. www.biorxiv.org/content/10.6... New since 2021: arbitrary ploidy, multiallelic sites, missingness-aware Watterson's θ and Tajima's D, Hudson's FST, multicore execution!

1/ Excited to share our preprint ImpuT2T: a pangenome-based assembly patching tool ImpuT2T scaffolds draft human assemblies with a pangenome (HPRC2) and patches gaps by leveraging linkage disequilibrium and sequence identity between contigs and reference haplotypes Code: github.com/maojanlin/Im...

ImpuT2T: Pangenome-Based Patching for Human Genome Assemblies

With improvements in sequencing and assembly have come many high-quality telomere-to-telomere assemblies and reference pangenomes. However, the long-read sequencing recipes needed for high quality ass...

biorxiv.org

Thoroughly enjoyed The Odyssey (finally) - although I can totally see why a classicist would balk at the tropes & poor character development. I’m just glad it wasn’t split into three parts.

Odyssey

ALT: Odyssey

static.klipy.com

So proud of this manuscript- lead by the fantastic @henryarenas.bsky.social with two undergraduates (Cage Cochran and Quinn Evans) each doing a Herculean effort during their honors theses, and Hongfei Chen helping out tremendously with lab work. www.biorxiv.org/content/10.6...

Maintenance of phenotypic divergence in two sympatric monkeyflowers with weak reproductive isolation

Sympatric species often exhibit permeable reproductive barriers, yet many of them coexist as phenotypically distinct entities. One way to account for this apparent paradox is that selection on loci th...

biorxiv.org

They found the wife guy gene (prairie vole edition) www.biorxiv.org/content/10.6...

Single-library chromosome-scale diploid assemblies of vole genomes resolve a species-specific duplication implicated in pair bonding

Comparing prairie voles ( Microtus ochrogaster ), a species that forms lasting pair bonds and exhibits biparental care, with meadow voles ( Microtus pennsylvanicus ), a non-monogamous species showing ...

biorxiv.org

ecoevojobs.net is a great resource for our community listing faculty, permanent, & postdoc jobs. I made a quick wrapper ( brianomeara.info/ecoevojobs.h... ) to highlight recent posts, but still go to the original site for all the insights on the job searches and institutions #AcademicSky 🧪

Very cool pair of papers demonstrating little link between amount of additive genetic variation and amount of nucleotide variation within species: journals.plos.org/plosbiology/... www.pnas.org/doi/10.1073/...

Levels of additive genetic variation vary substantially between species

Adaptive potential determines how populations respond to environmental change. This study compiles evolvability estimates from over 170 multicellular species, revealing substantial variation across th...

journals.plos.org

Shultz @beeharpur.bsky.social et al. documented the trajectory of a spontaneous deleterious mutation from its origin in a single queen to its extinction, directly observing how haplodiploidy exposes recessive alleles to immediate purifying selection 🔗 doi.org/10.1093/molbev/msag156 #societyjournal

Woke up to an ‘Accept pending major revisions’ email - I’ll take the small wins, especially when the revisions don’t seem that major at all 😊

Raccoon Clapping

ALT: Raccoon Clapping

static.klipy.com

youtu.be/lNaSdnz2I8g?... Hmmm. How are we all feeling about this yet another version of The Ramayana?

Namit Malhotra’s Ramayana- Hindi Trailer | Nitesh Tiwari | Ranbir, Yash, Hans Zimmer, A.R.Rahman

YouTube video by World Of Ramayana

youtu.be

Who's going? 🙋‍♂️ I have the honor of serving as the Chair of the Beckman Scholars Program's Executive Council this year - looking forward to hearing all the fun science from our superb Beckman Undergraduate Scholars across the nation.

Beckman Foundation@beckman-foundation.bsky.social · 7d ago

#BeckmanSymposium attendees: The agenda is on our website, located in the event program, sent to your email inbox, on the back of event nametags, on digital + print signage at the venue & will be posted on social as session reminders throughout Symposium – see you soon!

Hi Bluesky pop-gen peeps - I'm looking for a full RADseq service (extraction, QC, library prep, sequencing) provider for ~300 samples. Any leads? Not to spill the tea, but Berkeley and Wisconsin totally dropped the ball on my project, and won't fill out required tax forms/respond to calls. Dafuq?

Barack Obama's Iconic Shrug

ALT: Barack Obama's Iconic Shrug

static.klipy.com

Congrats to another newly minted MS from the Sethuraman Lab - Riley Jones! Riley will continue his awesome work in cancer genomics at the UCSD Moores Cancer Center. Cheers!

Look at this pokey bebe! ❤️

San Diego Zoo Wildlife Alliance @sandiegozoo.bsky.social · last wk.

Announcing the birth of this spike-tacular porcupette 🦔

Avocados come in 2 varieties - A-types start each day female and switch to male midday. B-types do the reverse. In work just published from the last chapter of my PhD, we show this system evolved 40+million yrs ago and is regulated by alleles of 1 transcription factor www.pnas.org/doi/10.1073/...

Balanced polymorphism in a floral transcription factor underlies the ancient rhythm of daily sex alternation in avocado | PNAS

In avocado and certain wild relatives in Lauraceae, a highly synchronized daily rhythm of floral sex timing promotes cross-pollination between two ...

pnas.org

Sincerely hoping that folks posting photos or videos of Jimothy are wiping geographical coordinates. Leave him the f alone!!!

Sleepy Raccoon Hides Under Blanket

ALT: Sleepy Raccoon Hides Under Blanket

static.klipy.com

OUT NOW in Nat Commns @natcomms.nature.com: HPV16 causes the majority of the 1,800 cervical cancers diagnosed every single day, but most infections are controlled by the immune system. Our study shows that these disparate outcomes are shaped by genetic variation in both host and virus. 🧬 1/9

@sandiegostate.bsky.social Biology is recruiting an Administrative Support Coordinator! Come work with me and my amazing team of Faculty and Staff. careers.sdsu.edu/en-us/job/56...

Much needed time yesterday with the besties, who got me some 2020 Paso Robles syrah to celebrate my promotions ❤️

❤️ Thanks, Henry! Poopcrust is how I feel today.

KOJAMF🤘🖤🤘@kojamf.bsky.social · 2w ago

Caturday henrysthoughts Henry "My neck looks exquisite today😌✨Wow."

Join our New Tech Session: HiFi Long-Read Bioinformatics Bootcamp! 🧬 Build a solid foundation for analyzing PacBio HiFi data with an on-demand video playlist plus a live Q&A with PacBio experts. Master key file formats, core tools, and data processing best practices. Register today: bit.ly/4yADNx5

Updated my applyingtoeeb.info site on applying to evolution and ecology grad school in the US to incorporate some of the latest immigration changes. Share with any REU or other students who might be considering grad school.

What a great group of students from across the world - so gratifying to see that folks across a variety of fields are utilizing model-based pop-genomics for their own systems. Cheers!

Physalia-courses@ONLINE@physaliacourses.bsky.social · 2w ago

A huge thank you to @arunsethuraman.bsky.social and all our wonderful participants for an inspiring week exploring demographic inference from population genomic data! 🧬🌍 And kudos to Arun for teaching complex models with a smile on his face all week! 😄👏

1/ The world's songbirds sing in just 8 basic sounds. And where a bird lives decides which ones it uses. My first PhD paper is out now in @science.org (www.science.org/doi/10.1126/science.aee6239) Here is what we found:

HPRC2: A human pangenome reference with near-complete coverage of common genetic variation https://www.biorxiv.org/content/10.64898/2026.07.21.739710v1

338 coleopteran genomes reveal exceptional rearrangement variation compared to other insect orders https://www.biorxiv.org/content/10.64898/2026.07.17.739156v1

I wish I did not have to bring up this old tweet from ‘that other place’ every now and again but here we are (again) and here it is…

This looks super cool: www.cell.com/current-biol...

Florida scrub-jay genomes across space and time reveal impacts of population decline and reduced gene flow

By analyzing genomes from 241 Florida scrub-jays across five populations and two time points, Nguyen et al. reveal substantial losses of genetic diversity and increased inbreeding following population...

cell.com