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lcolladotor.bsky.social
🇲🇽 Leonardo Collado-Torres
@lcolladotor.bsky.social
3.9K followers 2.8K following 350 posts
#RStats @Bioconductor.bsky.social/🧠 genomics @lieberinstitute.bsky.social + Asst. Prof. @jhubiostat.bsky.social/@lcgunam @jtleek.bsky.social @aejaffe.bsky.social alumni/ @libdrstats.bsky.social @CDSBMexico.bsky.social
http://lcolladotor.github.io
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lcolladotor.bsky.social
🇲🇽 Leonardo Collado-Torres @lcolladotor.bsky.social · 7d
I just completed my first radio 📻 interview ^_^

You'll be able to listen to it next Friday or so at www.iheart.com/podcast/269-.... Thanks Clau from iHeartRadio Miami's "Estamos Contigo" podcast for reaching out!

I'll be talking in Spanish about our recent #HabenulaLIBD 📜

bsky.app/profile/lcol...
Photo of Leonardo Collado Torres during a radio interview by Claudia Mendoza https://www.instagram.com/claudiamonair for iHeartRadio Miami's "Estamos Contigo" podcast. Leonardo works at LIBD https://bsky.app/profile/lieberinstitute.bsky.social and JHU Biostatistics https://bsky.app/profile/jhubiostat.bsky.social.
Reposted by 🇲🇽 Leonardo Collado-Torres
nick-eagles.bsky.social
Hot take: ggplot2 is better than any plotting option available in Python-- but I discuss a couple options in Python at an R Stats Club session @libdrstats.bsky.social linked below. I personally use plotnine, since it's essentially a port of ggplot2 for Python.

youtu.be/xK9UNcOfjnI
[2025-07-18] Plots in Python with seaborn and plotnine
YouTube video by Leonardo Collado Torres
youtu.be
November 13, 2025 at 3:02 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
kr-maynard.bsky.social
Congratulations to our habenula team! We've learned a lot about working in this tiny brain region. Here we characterize the molecular signatures of human habenula cell types and transcriptomic changes associated with schizophrenia. Stay tuned 👀 for more exciting habenula findings in the near future.
November 5, 2025 at 7:48 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
jorge-miranda.bsky.social
Happy to share that our paper characterizing PrL dynamics during sustained attention is finally out. This work was a collaboration between the @martinowk.bsky.social and Greg Carr groups at @lieberinstitute.bsky.social . www.nature.com/articles/s41...

#Calicumimaging #miniscopes #rCPT #PrL
Patterns of neural activity in prelimbic cortex neurons correlate with attentional behavior in the rodent continuous performance test - Translational Psychiatry
Translational Psychiatry - Patterns of neural activity in prelimbic cortex neurons correlate with attentional behavior in the rodent continuous performance test
www.nature.com
November 7, 2025 at 6:42 PM
lcolladotor.bsky.social
I just completed my first radio 📻 interview ^_^

You'll be able to listen to it next Friday or so at www.iheart.com/podcast/269-.... Thanks Clau from iHeartRadio Miami's "Estamos Contigo" podcast for reaching out!

I'll be talking in Spanish about our recent #HabenulaLIBD 📜

bsky.app/profile/lcol...
Photo of Leonardo Collado Torres during a radio interview by Claudia Mendoza https://www.instagram.com/claudiamonair for iHeartRadio Miami's "Estamos Contigo" podcast. Leonardo works at LIBD https://bsky.app/profile/lieberinstitute.bsky.social and JHU Biostatistics https://bsky.app/profile/jhubiostat.bsky.social.
November 7, 2025 at 3:58 PM
lcolladotor.bsky.social
Acá va en español 🇲🇽
--- o ---

"¡Estamos orgullosos de anunciar que nuestro artículo ‘Análisis Transcriptómico de la Habénula Humana en Esquizofrenia’ es el artículo de portada de la edición de noviembre del American Journal of Psychiatry!" 🧠 #HabenulaLIBD #snRNAseq #Habénula doi.org/10.1176/appi...
November 5, 2025 at 11:47 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
jhubiostat.bsky.social
Biostats professor @lcolladotor.bsky.social, along with his colleagues from @lieberinstitute.bsky.social, have created the first detailed molecular map of the human habenula, and with it gained new insights into its role in schizophrenia. Read the original study: psychiatryonline.org/doi/10.1176/...
Tiny Brain Region May Hold Clues to Schizophrenia, Scientists Say | The Lieber Institute for Brain Development | Research & Discovery
What the Study Found Scientists have long searched for what goes wrong in the brains of people with schizophrenia. Now, researchers at the Lieber Institute for Brain Development in Baltimore may have ...
www.libd.org
November 5, 2025 at 6:22 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
freneegf.bsky.social
Excited to share that the second project from my time at @lieberinstitute.bsky.social with @lcolladotor.bsky.social is now published! This was such a rewarding collaboration to be part of. 💡🧠
Huge congrats to @lahuuki.bsky.social and all co-authors!
November 5, 2025 at 4:58 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
libdrstats.bsky.social
#OpenData and #OpenCode from our latest @lieberinstitute.bsky.social project

Lots of #RStats and @bioconductor.bsky.social code inside of that repository!

#OpenScience
November 4, 2025 at 10:02 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
martinowk.bsky.social
Congrats to @lahuuki.bsky.social and many members of @kr-maynard.bsky.social and @lcolladotor.bsky.social teams in our division who contributed to this study! Really excited to see this paper now published with contribution of data resources for molecular profiles of human habenula cell types 🧠🔬🧪
November 4, 2025 at 9:58 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
lahuuki.bsky.social
Proud to announce our paper ‘Transcriptomic Analysis of the Human Habenula in Schizophrenia’ from @lieberinstitute.bsky.social is the cover article for the November issue of the American Journal of Psychiatry! 🧠 #HabenulaLIBD #snRNAseq #Habenula doi.org/10.1176/appi...
Transcriptomic Analysis of the Human Habenula in Schizophrenia | American Journal of Psychiatry
Objective: The objective of this study was to define the molecular neuroanatomy of the human habenula (Hb) and identify transcriptomic differences between brains of individuals with schizophrenia and ...
doi.org
November 4, 2025 at 9:31 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
berniejmulvey.bsky.social
Finally, we made 2 web tools to share to this unprecedently large human LC xscriptomic data. A 3rd (that visualizes high-res H&E and NM with and spatial gene xpr.) on the way (last URL). We hope these help the #bluespot #LC #catecholamines community! Tools at: research.libd.org/LFF_spatial_... (7/8)
Impact of Alzheimer’s disease risk factors and local neuromelanin content on the transcriptomic landscape of the human locus coeruleus
LFF project, spatial_LC data analysis
research.libd.org
October 31, 2025 at 3:42 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
berniejmulvey.bsky.social
Got with the times + made a BSky to share our new, large-scale spatial RNAseq study of adult human #locuscoeruleus! Co-1st auth and cryostat wizard @heenadivecha.bsky.social squeezed 85 tissue sections into 43 Visium arrays. (1/8)

www.biorxiv.org/content/10.1...
Impact of Alzheimer's disease risk factors and local neuromelanin content on the transcriptomic landscape of the human locus coeruleus
The locus coeruleus (LC) is a small noradrenergic nucleus in the dorsal pons that sends projections across the brain regulating sleep, arousal, attention, stress responses, and some forms of cognition...
www.biorxiv.org
October 31, 2025 at 3:42 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
martinowk.bsky.social
Excited to share our newest project using spatial transcriptomics with novel image analysis approaches to investigate the impact of biological risk factors for Alzheimer's disease (AD) - APOE haplotype, sex, and genomic ancestry - on molecular states in the locus coeruleus (LC 🔵) of the human 🧠.
October 31, 2025 at 5:24 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
simonpcouch.com
I'll be keynoting at R/Pharma a week from today! The conference is free and virtual. I'll be focused on the mundane use cases of LLMs for wrangling data with #rstats, and the content should feel applicable for folks outside of pharma—come through. :)

Register: events.zoom.us/ev/Ai-geyS63...
A title slide reading "Practical AI for data science" and my name and title.
October 29, 2025 at 7:32 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
martinowk.bsky.social
We are hiring for a PhD-level Staff Scientist to join our teams in the Translational Neuroscience Division @lieberinstitute.bsky.social. This is an exciting opportunity to work at the intersection of human 🧠 neuroanatomy and molecular neuroscience

recruiting.paylocity.com/recruiting/j...
Lieber Institute For Brain Development - Staff Scientist I, Translational Neuroscience
A little about us:The Lieber Institute for Brain Development (LIBD) was established in 2010 to plot a new course in biomedical research that would change the lives of individuals affected with develop...
recruiting.paylocity.com
October 29, 2025 at 4:03 PM
lcolladotor.bsky.social
Thanks again Weiqiang Zhou & Margaret Taub for organizing the "Current Topics in Biostatistics" seminar series for 1st year @jhubiostat.bsky.social students

While my notes (docs.google.com/document/d/1...) were similar, the questions and discussion lead me to talk about more about team organization
October 24, 2025 at 8:50 PM
lcolladotor.bsky.social
"What Makes a Good Data Visualization?" 🤔

Check @christinezhang.bsky.social's 🤩 excellent 💯 guest lecture for 140.776 Statistical Computing at @johnshopkinssph.bsky.social

📽️: youtu.be/SeLucCb05Dk

Slides: speakerdeck.com/lcolladotor/...

#RStats @jhubiostat.bsky.social @lieberinstitute.bsky.social
[2025-10-16] What Makes a Good Data Visualization?
YouTube video by Leonardo Collado Torres
youtu.be
October 24, 2025 at 7:22 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
jef.works
In this blog post, I use #RStats to explore publicly available ICE arrest data. #Dataviz shows recent trend where ICE are primarily targeting/locating people without criminal records in communities.

Code along and take a look for yourself: jef.works/blog/2025/09... #CodeTutorial
September 27, 2025 at 3:56 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
martinowk.bsky.social
We have several positions open at various levels (Research Assistant, Research Associate, Postdoctoral Fellow) across our highly interactive teams in the Division of Translational Neuroscience 🧠🔬🧪 @lieberinstitute.bsky.social

www.libd.org/careers/

Links to individual positions in the thread below.
Careers at LIBD | Medical Research Jobs | Lieber Institute
View our career opportunities with Lieber Institute for Brain Development including investigators, medical research jobs, scientists, & lab techs
www.libd.org
September 25, 2025 at 12:38 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
kellybodwin.com
I loved the "Hmmmmmm" in the crowd when @jcheng5.bsky.social showed this data quality problem uncovered by the #positron Databot tool.

No human caught this during the Tidy Tuesday for the data.

I've been skeptical of AI for data analysis, but this is an extremely compelling use case. 🫣
A slide showing that some rows of data have been systematically shifted left, leaving a missing data column and incorrect column alignment.
September 17, 2025 at 9:03 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
smachlis.bsky.social
Shiny app to search and filter posit::conf(2025) Bluesky posts with the #positconf2025 #positconf25 or #positconf hashtags.
App: apps.machlis.com/shiny/positc...
GitHub repo: github.com/smach/bluesk...
#RStats #RShiny
Screenshot of a web dashboard displaying Bluesky posts about posit::conf(2025), covering the period from January 8 to September 3, 2025. Top summary boxes show: * Total Posts: 61 * Unique Authors: 23 * Total Likes: 814 A searchable table lists individual posts with columns for CreatedAt, Text, Author, Likes, Reposts, Replies, and Tags. Four posts are visible including text, author, date, hashtags. (alt text mostly written by ChatGPT)
September 3, 2025 at 6:54 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
simonpcouch.com
@sara-altman.bsky.social and I just shared the second release of the Posit AI Newsletter! In this edition, a landmark settlement on LLM training data and copyright, the emergence of agentic browsers, and more.

Read and subscribe on the Posit Blog: posit.co/blog/2025-09...
A graphic displaying, on the left, three robot icons, and on the left, a selection of LLM-related R package hex stickers.
September 12, 2025 at 4:10 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
simonpcouch.com
So stoked to share about the first release of the Posit AI Newsletter!

@sara-altman.bsky.social and I have been working on a pilot of this newsletter internally for a few months now—an opinionated and pragmatic snapshot of AI news released every two weeks.

First edition: posit.co/blog/2025-08...
A graphic displaying, on the left, three robot icons, and on the left, a selection of LLM-related R package hex stickers.
August 29, 2025 at 3:01 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
prashanthi-ravi.bsky.social
(1/10) We’re excited to share our new preprint (doi.org/10.1101/2025...), which uncovers the spatiomolecular landscape of the human nucleus accumbens (NAc), by integrating snRNA-seq with Visium spatial transcriptomics across 10 control donors. 🧠 #NAcLIBD #snRNAseq #10xVisium
September 15, 2025 at 5:06 PM
Reposted by 🇲🇽 Leonardo Collado-Torres
mbarse.bsky.social
This paper reviews the latest computational approaches for cell-type deconvolution in spatial transcriptomics, comparing tools and data integration.

🔗 doi.org/10.1038/s415...

Thanks 🙌
@lgaspardboulinc.bsky.social, Luca Gortana, @thomas-walter.bsky.social, Emmanuel Barillot & Florence Cavalli
Cell-type deconvolution methods for spatial transcriptomics - Nature Reviews Genetics
Cell-type deconvolution methods are often needed to analyse spatial transcriptomic data to recover cell-type distributions. In this Review, the authors describe the process of cell-type deconvolution,...
doi.org
September 2, 2025 at 9:07 PM