Sam Morabito
@sam-morabito.bsky.social
🌴 Californian scientist in #Barcelona ☀️
🧬 EMBO postdoc @ cnag.eu
🧠 Systems Bio PhD from UC Irvine
#singlecell • #immunology • #cancer • #neuro • #bioinformatics • #genomics
https://smorabit.github.io/
🧬 EMBO postdoc @ cnag.eu
🧠 Systems Bio PhD from UC Irvine
#singlecell • #immunology • #cancer • #neuro • #bioinformatics • #genomics
https://smorabit.github.io/
Pinned
Sam Morabito
@sam-morabito.bsky.social
· Nov 25
Spatial and single-nucleus transcriptomic analysis of genetic and sporadic forms of Alzheimer’s disease - Nature Genetics
Spatial and single-nucleus analyses in human postmortem Alzheimer’s disease (AD) brain tissues at early and late stages from individuals with and without Down syndrome, as well as in AD mouse models, ...
www.nature.com
Our comparative spatial & single-nuc study of Alzheimer's, Down Syndrome in AD, and a genetic mouse model, just published in Nature Genetics. Massive effort of the 2nd half of my PhD, and a pleasure to work with co-first author Emily, my advisor Vivek, & many others at UC Irvine 🧠 🧬
A new comparative single-cell multi-omic study of two neurodegenerative disorders, Alzheimer's disease and Pick's disease.
A long time in the making and finally published last week!! 🥳
A long time in the making and finally published last week!! 🥳
🚨 Our new paper is out on Science Advances @science.org! We mapped single-cell regulatory landscapes in Alzheimer’s (AD) and Pick’s disease (PiD) to uncover how distinct enhancer and TF programs shape disease-specific vulnerability.
www.science.org/doi/10.1126/...
#ScienceAdvances
www.science.org/doi/10.1126/...
#ScienceAdvances
Single-nucleus multi-omics identifies shared and distinct pathways in Pick’s and Alzheimer’s disease
Comparative studies in AD and PiD reveal critical regulatory changes and identify risk gene associations for PiD.
www.science.org
November 18, 2025 at 10:34 AM
A new comparative single-cell multi-omic study of two neurodegenerative disorders, Alzheimer's disease and Pick's disease.
A long time in the making and finally published last week!! 🥳
A long time in the making and finally published last week!! 🥳
🗞️ Genetic diversity has a profound impact on genomic annotations, and there is currently a massive European bias in widespread annotations like GRCh38 🤯
This paper is the result of the hard work and passion of @pclavell.bsky.social and @fairlie.bsky.social, congrats to the authors!
This paper is the result of the hard work and passion of @pclavell.bsky.social and @fairlie.bsky.social, congrats to the authors!
Do you work in 💫human genetics💫?
Have you ever worried about what’s inside your gene annotation GTF⁉️
WELL, YOU SHOULD! 😱
Especially when studying a genetically diverse 🌍 cohort!
🔴We discover that gene annotations are European-biased 👉 impacting downstream analyses!
Don't miss this thread🧵⬇️
1/13
Have you ever worried about what’s inside your gene annotation GTF⁉️
WELL, YOU SHOULD! 😱
Especially when studying a genetically diverse 🌍 cohort!
🔴We discover that gene annotations are European-biased 👉 impacting downstream analyses!
Don't miss this thread🧵⬇️
1/13
Long-read transcriptomics of a diverse human cohort reveals widespread ancestry bias in gene annotation
Accurate gene annotations are fundamental for interpreting genetic variation, cellular function, and disease mechanisms. However, current human gene annotations are largely derived from transcriptomic...
www.biorxiv.org
March 20, 2025 at 2:49 PM
🗞️ Genetic diversity has a profound impact on genomic annotations, and there is currently a massive European bias in widespread annotations like GRCh38 🤯
This paper is the result of the hard work and passion of @pclavell.bsky.social and @fairlie.bsky.social, congrats to the authors!
This paper is the result of the hard work and passion of @pclavell.bsky.social and @fairlie.bsky.social, congrats to the authors!
Reposted by Sam Morabito
Long-read transcriptomics of a diverse human cohort reveals widespread ancestry bias in gene annotation https://www.biorxiv.org/content/10.1101/2025.03.14.643250v1
March 17, 2025 at 7:34 PM
Long-read transcriptomics of a diverse human cohort reveals widespread ancestry bias in gene annotation https://www.biorxiv.org/content/10.1101/2025.03.14.643250v1
Reposted by Sam Morabito
I got laid off today, with the rest of 18F.
18F was an elite federal software shop. We made gov't websites work better, more efficiently for the American people. We saved taxpayers from getting screwed over by contractors. And were fired for it.
We made this website to tell our story:
18f.org
18F was an elite federal software shop. We made gov't websites work better, more efficiently for the American people. We saved taxpayers from getting screwed over by contractors. And were fired for it.
We made this website to tell our story:
18f.org
We're not done yet | 18F
18f.org
March 1, 2025 at 10:38 PM
I got laid off today, with the rest of 18F.
18F was an elite federal software shop. We made gov't websites work better, more efficiently for the American people. We saved taxpayers from getting screwed over by contractors. And were fired for it.
We made this website to tell our story:
18f.org
18F was an elite federal software shop. We made gov't websites work better, more efficiently for the American people. We saved taxpayers from getting screwed over by contractors. And were fired for it.
We made this website to tell our story:
18f.org
Reposted by Sam Morabito
“Assume that what you write will be read by malign foreign actors and tailor your response accordingly.”
New — HHS just got another email with guidance stating that they aren’t required to respond to the 5 bullets email, but if they do they should follow specific guidelines including:
“Assume that what you write will be read by malign foreign actors and tailor your response accordingly.”
“Assume that what you write will be read by malign foreign actors and tailor your response accordingly.”
February 25, 2025 at 12:33 AM
“Assume that what you write will be read by malign foreign actors and tailor your response accordingly.”
Reposted by Sam Morabito
As a result of Trump’s slashes to research funding, dozens of graduate programs have announced reductions and cancellations of graduate admissions slots.
If you are an impacted applicant, please fill out this survey: docs.google.com/forms/d/e/1F...
🧪🧠🧬🔬🥼👩🏼🔬🧑🔬
If you are an impacted applicant, please fill out this survey: docs.google.com/forms/d/e/1F...
🧪🧠🧬🔬🥼👩🏼🔬🧑🔬
Grad Admission Impacts Survey
It is grad admissions season and many postbacs are feeling the chilling impacts of the Trump administration's recent executive orders freezing and slashing extramural research funding. Dozens of gradu...
docs.google.com
February 24, 2025 at 3:51 AM
As a result of Trump’s slashes to research funding, dozens of graduate programs have announced reductions and cancellations of graduate admissions slots.
If you are an impacted applicant, please fill out this survey: docs.google.com/forms/d/e/1F...
🧪🧠🧬🔬🥼👩🏼🔬🧑🔬
If you are an impacted applicant, please fill out this survey: docs.google.com/forms/d/e/1F...
🧪🧠🧬🔬🥼👩🏼🔬🧑🔬
Reposted by Sam Morabito
🌟Great News: CNAG is now on BlueSky!
🚀From Barcelona to the world, we’re bringing you the latest in genomics!
Stay tuned for breaking news, cutting-edge technologies, groundbreaking research, and upcoming events
🔗https://www.cnag.eu
#Genomics #Innovation #Research #BlueSky #CNAG
🚀From Barcelona to the world, we’re bringing you the latest in genomics!
Stay tuned for breaking news, cutting-edge technologies, groundbreaking research, and upcoming events
🔗https://www.cnag.eu
#Genomics #Innovation #Research #BlueSky #CNAG
a blue sky with a butterfly and the word bluesky on it
ALT: a blue sky with a butterfly and the word bluesky on it
media.tenor.com
February 19, 2025 at 1:33 PM
🌟Great News: CNAG is now on BlueSky!
🚀From Barcelona to the world, we’re bringing you the latest in genomics!
Stay tuned for breaking news, cutting-edge technologies, groundbreaking research, and upcoming events
🔗https://www.cnag.eu
#Genomics #Innovation #Research #BlueSky #CNAG
🚀From Barcelona to the world, we’re bringing you the latest in genomics!
Stay tuned for breaking news, cutting-edge technologies, groundbreaking research, and upcoming events
🔗https://www.cnag.eu
#Genomics #Innovation #Research #BlueSky #CNAG
Reposted by Sam Morabito
Pretty sad. Just got the email that CZI is canceling the second round of Diversity Leadership Awards. Private industry will definitely not fill the hole that NIH and NSF are leaving. 😢💔
February 19, 2025 at 1:03 AM
Pretty sad. Just got the email that CZI is canceling the second round of Diversity Leadership Awards. Private industry will definitely not fill the hole that NIH and NSF are leaving. 😢💔
Reposted by Sam Morabito
I was just told that I have to remove “climate” from the title of an ongoing grant if I want to keep it. And publications from that grant cannot include “climate” and other forbidden words. I can’t believe I’m writing this from the United States of America. #AcademicSky
Just received an email saying that it's not advisable to include the following words in future applications for research funding to the US DOT. Here we are.
February 10, 2025 at 9:00 PM
I was just told that I have to remove “climate” from the title of an ongoing grant if I want to keep it. And publications from that grant cannot include “climate” and other forbidden words. I can’t believe I’m writing this from the United States of America. #AcademicSky
Reposted by Sam Morabito
The National Institutes of Health plans to severely cut the percentage of its grant money that can be used for overhead costs rather than research.
NIH slashes overhead payments for research, sparking outrage
Move to cut indirect cost rate to 15% could cost universities billions of dollars
scim.ag
February 8, 2025 at 2:50 AM
The National Institutes of Health plans to severely cut the percentage of its grant money that can be used for overhead costs rather than research.
Reposted by Sam Morabito
1. Today the NIH director issued a new directive slashing overhead rates to 15%.
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
NOT-OD-25-068: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Supplemental Guidance to the 2024 NIH Grants Policy Statement: Indirect Cost Rates NOT-OD-25-068. OD
grants.nih.gov
February 8, 2025 at 12:18 AM
1. Today the NIH director issued a new directive slashing overhead rates to 15%.
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
I want to provide some context on what that means and why it matters.
grants.nih.gov/grants/guide...
Reposted by Sam Morabito
Inspired by @charlesgaba.com's Herculean effort to post all Wayback URLs from the CDC website (including pages that have recently been deleted), I built this GitHub repo to share Wayback links to all CDC website pages, and will add more websites when I get a chance github.com/Niema-Lab/Go...
February 4, 2025 at 11:36 PM
Inspired by @charlesgaba.com's Herculean effort to post all Wayback URLs from the CDC website (including pages that have recently been deleted), I built this GitHub repo to share Wayback links to all CDC website pages, and will add more websites when I get a chance github.com/Niema-Lab/Go...
Reposted by Sam Morabito
📢 SUPER EXCITED to share our latest preprint:
Decoding the immune response in leptomeningeal disease through single-cell sequencing of cerebrospinal fluid
Incredible work and collaboration from @jcnietos.bsky.social @piazeiner.bsky.social @hoheyn.bsky.social and others.
biorxiv.org/content/10.110…
Decoding the immune response in leptomeningeal disease through single-cell sequencing of cerebrospinal fluid
Incredible work and collaboration from @jcnietos.bsky.social @piazeiner.bsky.social @hoheyn.bsky.social and others.
biorxiv.org/content/10.110…
https://biorxiv.org/content/10.110…
January 29, 2025 at 11:07 AM
📢 SUPER EXCITED to share our latest preprint:
Decoding the immune response in leptomeningeal disease through single-cell sequencing of cerebrospinal fluid
Incredible work and collaboration from @jcnietos.bsky.social @piazeiner.bsky.social @hoheyn.bsky.social and others.
biorxiv.org/content/10.110…
Decoding the immune response in leptomeningeal disease through single-cell sequencing of cerebrospinal fluid
Incredible work and collaboration from @jcnietos.bsky.social @piazeiner.bsky.social @hoheyn.bsky.social and others.
biorxiv.org/content/10.110…
Reposted by Sam Morabito
All NIH study sections canceled indefinitely. This will halt science and devastate research budgets in universities.
January 22, 2025 at 8:46 PM
All NIH study sections canceled indefinitely. This will halt science and devastate research budgets in universities.
Overjoyed to share that I was selected for the EMBO #postdoc fellowship for my proposal titled "Charting immune cell signatures to tackle non-response to immunotherapy in colorectal cancer". Excited to work on this project over the next few years in #Barcelona!
#EMBOFellows
#EMBOFellows
December 12, 2024 at 2:14 PM
Overjoyed to share that I was selected for the EMBO #postdoc fellowship for my proposal titled "Charting immune cell signatures to tackle non-response to immunotherapy in colorectal cancer". Excited to work on this project over the next few years in #Barcelona!
#EMBOFellows
#EMBOFellows
Reposted by Sam Morabito
3 reviews on planning, execution, & validation of transcriptomic experiments in neuroscience published in @natureportfolio.bsky.social #NatureNeuroscience.
A MUST READ if you're doing transcriptomics.
3 reviews, an amazing editorial, a beautiful cover – this is the issue of the year!
(mini thread)
A MUST READ if you're doing transcriptomics.
3 reviews, an amazing editorial, a beautiful cover – this is the issue of the year!
(mini thread)
December 11, 2024 at 5:04 PM
3 reviews on planning, execution, & validation of transcriptomic experiments in neuroscience published in @natureportfolio.bsky.social #NatureNeuroscience.
A MUST READ if you're doing transcriptomics.
3 reviews, an amazing editorial, a beautiful cover – this is the issue of the year!
(mini thread)
A MUST READ if you're doing transcriptomics.
3 reviews, an amazing editorial, a beautiful cover – this is the issue of the year!
(mini thread)
Reposted by Sam Morabito
So excited that our work on predicting gene expression from histone modifications using deep learning is out in NAR today. Brilliant to work with lead author @al-murphy.bsky.social and collaborators Aydan Askarova, @borislenhard.bsky.social and Nathan Skene 🧬⭐️🙏
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
Predicting gene expression from histone marks using chromatin deep learning models depends on histone mark function, regulatory distance and cellular states
Abstract. To understand the complex relationship between histone mark activity and gene expression, recent advances have used in silico predictions based o
academic.oup.com
December 11, 2024 at 5:02 PM
So excited that our work on predicting gene expression from histone modifications using deep learning is out in NAR today. Brilliant to work with lead author @al-murphy.bsky.social and collaborators Aydan Askarova, @borislenhard.bsky.social and Nathan Skene 🧬⭐️🙏
academic.oup.com/nar/advance-...
academic.oup.com/nar/advance-...
A really nice summary on Alzforum of my recent paper where we used #SingleCell and #spatial #omics to investigate molecular and cellular abnormalities in the brains of individuals with Alzheimer's in Down Syndrome (DSAD).
www.alzforum.org/news/researc...
www.alzforum.org/news/researc...
In Alzheimer’s Due to Down’s, Spatial Omics Spots Signs of Trouble | ALZFORUM
www.alzforum.org
December 11, 2024 at 10:02 AM
A really nice summary on Alzforum of my recent paper where we used #SingleCell and #spatial #omics to investigate molecular and cellular abnormalities in the brains of individuals with Alzheimer's in Down Syndrome (DSAD).
www.alzforum.org/news/researc...
www.alzforum.org/news/researc...
Reposted by Sam Morabito
Big day for single cell and neuroscience. Trio of single cell perspective pieces discussing applications, opportunities, challenges, and validation of single cell and spatial genomics in neuroscience are out now in Nature Neuroscience. Links in thread below.👇 1/n
December 3, 2024 at 5:22 PM
Big day for single cell and neuroscience. Trio of single cell perspective pieces discussing applications, opportunities, challenges, and validation of single cell and spatial genomics in neuroscience are out now in Nature Neuroscience. Links in thread below.👇 1/n
Reposted by Sam Morabito
A little piece that's been in the works with former MSc, now PhD student, Jiayi Wang & @markrobinsonca.bsky.social in the multi-sample/-condition/-subpopulation theme: ...
Disentangling cell type and state transcriptional programs https://www.biorxiv.org/content/10.1101/2024.11.29.626057v1
Disentangling cell type and state transcriptional programs https://www.biorxiv.org/content/10.1101/2024.11.29.626057v1
Single-cell omics approaches profile molecular constituents of individual cells. Replicated multi-co
www.biorxiv.org
December 4, 2024 at 11:47 AM
A little piece that's been in the works with former MSc, now PhD student, Jiayi Wang & @markrobinsonca.bsky.social in the multi-sample/-condition/-subpopulation theme: ...
Reposted by Sam Morabito
Hi all! I'm a computational biologist studying the impact of variation on the functional genome at @bsc-cns.bsky.social. Consortium alumnus (ENCODE, LRGASP, IGVF @igvfconsortium.bsky.social); @ucirvine.bsky.social PhD; @ucsandiego.bsky.social BS; and recent transplant from California to Barcelona.
December 3, 2024 at 2:42 PM
Hi all! I'm a computational biologist studying the impact of variation on the functional genome at @bsc-cns.bsky.social. Consortium alumnus (ENCODE, LRGASP, IGVF @igvfconsortium.bsky.social); @ucirvine.bsky.social PhD; @ucsandiego.bsky.social BS; and recent transplant from California to Barcelona.
Reposted by Sam Morabito
News & Views with @irholtman.bsky.social on spatial and single-cell gene expression analyses of Alzheimer's and Down's Sydrome www.nature.com/articles/s41.... This is a commentary on the work by the Swarup lab: www.nature.com/articles/s41....
Spatial mapping of Alzheimer’s disease across genetic subtypes - Nature Genetics
Alzheimer’s disease is a complex, heterogeneous disorder with multiple genetic subtypes. Spatial and single-cell gene expression analyses of these subtypes have provided new insights into general and ...
www.nature.com
November 25, 2024 at 1:55 PM
News & Views with @irholtman.bsky.social on spatial and single-cell gene expression analyses of Alzheimer's and Down's Sydrome www.nature.com/articles/s41.... This is a commentary on the work by the Swarup lab: www.nature.com/articles/s41....
Our comparative spatial & single-nuc study of Alzheimer's, Down Syndrome in AD, and a genetic mouse model, just published in Nature Genetics. Massive effort of the 2nd half of my PhD, and a pleasure to work with co-first author Emily, my advisor Vivek, & many others at UC Irvine 🧠 🧬
Spatial and single-nucleus transcriptomic analysis of genetic and sporadic forms of Alzheimer’s disease - Nature Genetics
Spatial and single-nucleus analyses in human postmortem Alzheimer’s disease (AD) brain tissues at early and late stages from individuals with and without Down syndrome, as well as in AD mouse models, ...
www.nature.com
November 25, 2024 at 3:44 PM
Our comparative spatial & single-nuc study of Alzheimer's, Down Syndrome in AD, and a genetic mouse model, just published in Nature Genetics. Massive effort of the 2nd half of my PhD, and a pleasure to work with co-first author Emily, my advisor Vivek, & many others at UC Irvine 🧠 🧬
Reposted by Sam Morabito
STAMPing single cell like never before…at a ~0.25c/cell single cell-imaging is the new single cell-sequencing. www.biorxiv.org/content/10.1...
STAMP: Single-Cell Transcriptomics Analysis and Multimodal Profiling through Imaging
We introduce Single-Cell Transcriptomics Analysis and Multimodal Profiling (STAMP), a scalable profiling approach of individual cells. Leveraging transcriptomics and proteomics imaging platforms, STAM...
www.biorxiv.org
November 24, 2024 at 8:55 AM
STAMPing single cell like never before…at a ~0.25c/cell single cell-imaging is the new single cell-sequencing. www.biorxiv.org/content/10.1...
👀 Working on a #StarterPack for early career researchers (PhD students & Postdocs) in #genomics & #bioinformatics 🧬🖥️ Please share! Happy to add those working in this area so please suggest. Seeing a lot of PIs on here but would love to see more students 🎓🚀
November 20, 2024 at 3:38 PM
👀 Working on a #StarterPack for early career researchers (PhD students & Postdocs) in #genomics & #bioinformatics 🧬🖥️ Please share! Happy to add those working in this area so please suggest. Seeing a lot of PIs on here but would love to see more students 🎓🚀