Helena Reyes Gopar

This is great.
I've given an example in class showing how priors can make some unidentified problems identifiable:

a+b=6, solve for b.
Prior: a=0~4

It’s obvious

Had a few days home in México, had a beautiful view as I left

#Teotihuacan

AI Is the Bubble to Burst Them All I talked to the scholars who literally wrote the book on tech bubbles—and applied their test.

There's been endless talk about an AI bubble, but less about exactly how, why, and how much it's a bubble. So I turned to the framework put forward by scholars Brent Goldfarb and David A. Kirsch, authors of "Bubbles and Crashes," for assessing tech bubbles.

Spoiler: On a scale of 1 to 8, AI is an 8

Why aren’t language models acting/interacting like a graph? (Or are they? Idk). It seems so obvious that while human conversations are iterative, they’re nonlinear and that’s how you get to the point/good stuff

🥲

The strongest argument I keep hearing for AI is that it makes many admin tasks and paperwork easy. This basically rephrases what many have been saying for decades - there is a vast and unnecessary administrative bloat mandated by “business best practice” that needs to vanish.

Doesnt it have to do with memory instead?

Yesterday I attended Harin’s excellent defense where he talked about this study, which is a great reason to give it another shoutout.

Does population size affect the diversity of the music that people listen to? Really nice example how to make use of a DAG in practice!

Are housekeeping genes now the ones we see expressed in every single single-cell cell?

🫠😂😭
That’d be because it’s the people haha not the projects

We just launched Foursquare Spatial Desktop – a geospatial analysis tool powered by embedded DuckDB and built on sqlrooms.org. Everything runs locally: your data stays on your machine, no cloud needed. A modern reimagining of Kepler.gl. Mac only for now. More coming.
foursquare.com/products/spa...

A single-cell transposable element atlas of human cell identity Reyes-Gopar et al. introduce Stellarscope, a computational approach for quantifying locus-specific transposable element expression in single-cell RNA sequencing data. The authors profile human PBMCs and reveal transposable elements marking specific cell subtypes. Stellarscope is available as an open-source package and promises to enable continued study of “genomic dark matter.”

A single-cell transposable element atlas of human cell identity

Thrilled to share this work! I am honored to learn from @mlbendall.bsky.social and so grateful for his guidance and mentorship.

Stellarscope is just the beginning!

There is so much to learn about TEs and now we can all explore the uncharted territory of single cell retro-genomics 🧬🔭

Thank you for sharing. This is so important as it takes one single generation to lose sometimes as fundamental as a 'native' language, this has been the case for a lot of people in Mexico who migrate seeking education and irreversibly exchange precious things for it ❤️‍🩹

do you ever stare at the ceiling and think about how the worldwide scientific establishment did the impossible and created a COVID vaccine in under a year and the response of the general public has been to go on an unstoppable rampage to destroy science and scientists

Quantification of transcript isoforms at the single-cell level using SCALPEL - Nature Communications Single-cell RNA-seq facilitates the study of transcriptome diversity in individual cells. Here, authors introduce a tool for isoform quantification at the single-cell level using 3’ scRNA-seq data, co...

I’m really happy to present #SCALPEL, a new #Nextflow tool to quantify transcript isoforms at the single-cell level using conventional 3’ scRNA-seq data #scRNA-seq #single-cell #tools #isoforms
www.nature.com/articles/s41...

NHGRI (at NIH)'s chart on the declining cost of sequencing a human genome from 2001 to 2021, falling faster than Moore's law.

The "$1,000 genome" catchphrase was first publicly recorded in December 2001 at a scientific retreat to discuss the future of biomedical research following publication of the first draft of the Human Genome Project (HGP), convened by the National Human Genome Research Institute at Airlie House in Virginia.[5] The phrase neatly highlighted the chasm between the actual cost of the Human Genome Project, estimated at $2.7 billion over a decade, and the benchmark for routine, affordable personal genome sequencing. On 2 October 2002, Craig Venter introduced the opening session of GSAC (The Genome Sequencing and Analysis Conference) at the Hynes Convention Center in Boston: "The Future of Sequencing: Advancing Towards the $1,000 Genome." Speakers included George M. Church and executives from 454 Life Sciences, Solexa, U.S. Genomics, VisiGen and Amersham plc.[6][7] In 2003, Venter announced that his foundation would earmark $500,000 for a breakthrough leading to the $1,000 genome.[8] That sum was subsequently rolled into the Archon X Prize. In October 2004, NHGRI introduced the first in a series of '$1,000 Genome' grants designed to advance "the development of breakthrough technologies that will enable a human-sized genome to be sequenced for $1,000 or less."[9]

Sad news:

The dataset behind this famous chart on the decline in costs of genome sequencing has had its NIH funding cut.

I loved this chart because it was the first that made me appreciate the impact of dataviz. But it also tracked progress towards an ambitious goal ($1000 genome) that succeeded.

Unhinged 🚪 channel? 😋

Like, ls() and the output can be -ltr

I am just a simple girl with big dreams
(and adhd lol)

Nah, for the objects

All ask for is the equivalent of ls -ltr
Do you know if it has it?

xD

MexOMICs Maps the Genetic and Social Landscape of Disease in Mexico By focusing on twins and patients with lupus and Parkinson’s disease, a Mexican consortium is generating critical data to understand health and disease in the country.

Thanks @lecteroide.bsky.social for the opportunity to share the efforts developed in MexOmics

www.the-scientist.com/mexomics-map...

One old fish needed to sense its environment and now I have to floss every night

(Isn’t evolution the coolest thing ever?! 👹🌀🧬🤗)

I wonder if easy-to-remember memories that are accompanied by ‘negative’ strong emotion (i.e. the opposite of insight?) follow the same or a different pathway in the brain activity

Been horrifying teammates by referring to undocumented information that's held only in people's heads as "locked in meat storage".

Please use this with your teams/projects and report back on how they like it?

Why so many women? 🫠

@dartar.bsky.social: Why Latin America? @chanzuckerberg.bsky.social #CZIAcceleratingScienceLA

No turnstiles, epigenetics! :3

Ok I know it’s Friday, I’ll show myself out 🤓😂