Dr. Arpiar Saunders
@your-arpy.bsky.social
Neuroscientist and molecular engineer at the Vollum Institute (OHSU). Our lab maps the molecular, cellular and synaptic organization of the brain through viral genomic technology. Opinions my own.
Pinned
🔍 Recently published in Bioinformatics Advances: "AnnSQL: A Python SQL-based package for fast large-scale single-cell genomics analysis using minimal computational resources"
Read the full paper here: https://doi.org/10.1093/bioadv/vbaf105
Authors: @kennypavan.com and @your-arpy.bsky.social
Read the full paper here: https://doi.org/10.1093/bioadv/vbaf105
Authors: @kennypavan.com and @your-arpy.bsky.social
@kennypavan.com's AnnSQL software for facile, lightning-fast analysis of large-scale scRNA-seq datasets is out now in @bioinfoadv.bsky.social. >19k downloads thus far and we'd love to grow the developer base. Easily analyze millions of RNA profiles from your laptop. No HPC necessary!
Reposted by Dr. Arpiar Saunders
For the first time, scientists using #cryoelectron microscopy have discovered the structure and shape of key receptors connecting #neurons in the brain’s cerebellum, which plays a critical role in functions such as coordinating movement, balance and cognition. #OHSUResearch bit.ly/4b9gOw9
June 26, 2025 at 12:32 AM
For the first time, scientists using #cryoelectron microscopy have discovered the structure and shape of key receptors connecting #neurons in the brain’s cerebellum, which plays a critical role in functions such as coordinating movement, balance and cognition. #OHSUResearch bit.ly/4b9gOw9
Portland, OR showing OUT for #nokings. To hamper a guess - 30,000, maybe more? - saying hell no to Trump et al in a wonderful and humorous way. So tough to distill a protest sign to dissent against such a broad collection of despicable policies…I went with #TrumpIsGarbage
June 15, 2025 at 4:19 AM
Portland, OR showing OUT for #nokings. To hamper a guess - 30,000, maybe more? - saying hell no to Trump et al in a wonderful and humorous way. So tough to distill a protest sign to dissent against such a broad collection of despicable policies…I went with #TrumpIsGarbage
Reposted by Dr. Arpiar Saunders
No exaggeration, the protest march had probably close to two miles long of wall-to-wall people walking at once
The scale of the rally in Portland is MASSIVE.
Simultaneously crossing the Morrison and Hawthorne Bridges in one long parade of democracy.
Tens of thousands of people. #NoKings
Simultaneously crossing the Morrison and Hawthorne Bridges in one long parade of democracy.
Tens of thousands of people. #NoKings
June 14, 2025 at 11:54 PM
No exaggeration, the protest march had probably close to two miles long of wall-to-wall people walking at once
Reposted by Dr. Arpiar Saunders
Reposted by Dr. Arpiar Saunders
Outstanding op-ed from Carole LaBonne
Universities and the government: Which needs the other more?
College-based research labs are the workhorses of national progress and prosperity.
wapo.st/3ZR1vFm
1/n
Universities and the government: Which needs the other more?
College-based research labs are the workhorses of national progress and prosperity.
wapo.st/3ZR1vFm
1/n
wapo.st
June 6, 2025 at 4:47 PM
Outstanding op-ed from Carole LaBonne
Universities and the government: Which needs the other more?
College-based research labs are the workhorses of national progress and prosperity.
wapo.st/3ZR1vFm
1/n
Universities and the government: Which needs the other more?
College-based research labs are the workhorses of national progress and prosperity.
wapo.st/3ZR1vFm
1/n
Reposted by Dr. Arpiar Saunders
Reposted by Dr. Arpiar Saunders
FlyBase, a crucial resource for drosophila research, has lost its funding because its grant is awarded to Harvard. The team is scrambling to find other sources of funds, including donations from labs. Read more: www.thetransmitter.org/community/fl... @flybase.bsky.social
FlyBase funding squashed amid Harvard grant terminations
The team behind the Drosophila genetics database is now requesting donations from labs to keep the resource afloat.
www.thetransmitter.org
June 4, 2025 at 9:11 PM
FlyBase, a crucial resource for drosophila research, has lost its funding because its grant is awarded to Harvard. The team is scrambling to find other sources of funds, including donations from labs. Read more: www.thetransmitter.org/community/fl... @flybase.bsky.social
Reposted by Dr. Arpiar Saunders
How can you know if gene delivery in a primate worked Typically through expensive scans or histology. With
@vincentcostaphd.bsky.social
and co-authors we made synthetic markers that monitor gene delivery and Cre-dependent expression with a blood test:
www.biorxiv.org/content/10.1...
@vincentcostaphd.bsky.social
and co-authors we made synthetic markers that monitor gene delivery and Cre-dependent expression with a blood test:
www.biorxiv.org/content/10.1...
June 2, 2025 at 11:45 PM
How can you know if gene delivery in a primate worked Typically through expensive scans or histology. With
@vincentcostaphd.bsky.social
and co-authors we made synthetic markers that monitor gene delivery and Cre-dependent expression with a blood test:
www.biorxiv.org/content/10.1...
@vincentcostaphd.bsky.social
and co-authors we made synthetic markers that monitor gene delivery and Cre-dependent expression with a blood test:
www.biorxiv.org/content/10.1...
Reposted by Dr. Arpiar Saunders
"Our calculations suggest that the proposed budgetary cuts to the NIH will create a social cost that is 16 times greater than the savings that the administration is attempting to achieve."
jamanetwork.com/journals/jam...
jamanetwork.com/journals/jam...
Cutting the NIH—The $8 Trillion Health Care Catastrophe
This JAMA Forum discusses the recent budget cuts to National Institutes of Health (NIH), the effects of these cuts on scientific research and health of individuals in the US, and the prospects for cha...
jamanetwork.com
May 30, 2025 at 7:10 PM
"Our calculations suggest that the proposed budgetary cuts to the NIH will create a social cost that is 16 times greater than the savings that the administration is attempting to achieve."
jamanetwork.com/journals/jam...
jamanetwork.com/journals/jam...
Reposted by Dr. Arpiar Saunders
I am deeply furious. Lost an expected baby last fall (harrowing in GA because of bad abortion laws) and now any future pregnancy I may be able to have is higher risk because I can’t get this safe effective vaccine. Insult to injury, AGAIN. These rules are terrible for families.
1/ If I were pregnant, or considering ever becoming pregnant, I would be so outraged at RFK delisting COVID vaccination.
Not only are unvaccinated women much more likely to miscarry or have a stillbirth if they contract COVID but it leaves newborns, who are extra susceptible, extremely vulnerable.
Not only are unvaccinated women much more likely to miscarry or have a stillbirth if they contract COVID but it leaves newborns, who are extra susceptible, extremely vulnerable.
May 28, 2025 at 8:21 PM
I am deeply furious. Lost an expected baby last fall (harrowing in GA because of bad abortion laws) and now any future pregnancy I may be able to have is higher risk because I can’t get this safe effective vaccine. Insult to injury, AGAIN. These rules are terrible for families.
@kennypavan.com's AnnSQL software for facile, lightning-fast analysis of large-scale scRNA-seq datasets is out now in @bioinfoadv.bsky.social. >19k downloads thus far and we'd love to grow the developer base. Easily analyze millions of RNA profiles from your laptop. No HPC necessary!
🔍 Recently published in Bioinformatics Advances: "AnnSQL: A Python SQL-based package for fast large-scale single-cell genomics analysis using minimal computational resources"
Read the full paper here: https://doi.org/10.1093/bioadv/vbaf105
Authors: @kennypavan.com and @your-arpy.bsky.social
Read the full paper here: https://doi.org/10.1093/bioadv/vbaf105
Authors: @kennypavan.com and @your-arpy.bsky.social
May 7, 2025 at 3:31 PM
@kennypavan.com's AnnSQL software for facile, lightning-fast analysis of large-scale scRNA-seq datasets is out now in @bioinfoadv.bsky.social. >19k downloads thus far and we'd love to grow the developer base. Easily analyze millions of RNA profiles from your laptop. No HPC necessary!
Reposted by Dr. Arpiar Saunders
Reposted by Dr. Arpiar Saunders
Published an op-ed for @cnn.com: “Nobel laureate: I owe America my success. Today, its scientific future is in danger.”
A personal reflection on what’s at stake as science funding gets slashed. I’d be grateful if you could amplify both in and beyond the science world.
www.cnn.com/2025/04/09/h...
A personal reflection on what’s at stake as science funding gets slashed. I’d be grateful if you could amplify both in and beyond the science world.
www.cnn.com/2025/04/09/h...
Nobel laureate: I owe America my success. Today, its scientific future is in danger | CNN
Dr. Ardem Patapoutian says he watches “with deep sadness as the United States’ remarkable scientific enterprise, which took generations of hard work and national investment to build, faces a concerted...
www.cnn.com
April 9, 2025 at 11:30 AM
Published an op-ed for @cnn.com: “Nobel laureate: I owe America my success. Today, its scientific future is in danger.”
A personal reflection on what’s at stake as science funding gets slashed. I’d be grateful if you could amplify both in and beyond the science world.
www.cnn.com/2025/04/09/h...
A personal reflection on what’s at stake as science funding gets slashed. I’d be grateful if you could amplify both in and beyond the science world.
www.cnn.com/2025/04/09/h...
Reposted by Dr. Arpiar Saunders
If you’re a scientist whose funding has recently been cut or impacted, I would love to interview you and amplify your work!
Hoping to release our first two podcast episodes next week.
Please share widely!
Hoping to release our first two podcast episodes next week.
Please share widely!
April 9, 2025 at 12:55 AM
If you’re a scientist whose funding has recently been cut or impacted, I would love to interview you and amplify your work!
Hoping to release our first two podcast episodes next week.
Please share widely!
Hoping to release our first two podcast episodes next week.
Please share widely!
Ended up in tiny Tillamook, OR this weekend with the fam and was heartened to join hundreds of #handsoff protesters. I’d say 85% positive car responses in a county that went 50/50 in November.
April 5, 2025 at 10:08 PM
Ended up in tiny Tillamook, OR this weekend with the fam and was heartened to join hundreds of #handsoff protesters. I’d say 85% positive car responses in a county that went 50/50 in November.
In recognition of an extraordinary track record of intra and extramural dopamine fluffing at the @volluminstitute.bsky.social
Well, the good news is it came with a check for $20,000,000,000. So no more grant writing for me…as soon as the check clears! Thanks @your-arpy.bsky.social
April 1, 2025 at 3:57 PM
In recognition of an extraordinary track record of intra and extramural dopamine fluffing at the @volluminstitute.bsky.social
Please check out AnnSQL v1 if you’re working with large single-cell/nucleus RNA-seq datasets! Blazing fast! New features!
𝗔𝗻𝗻𝗦𝗤𝗟 v1 has landed! Explore atlas sized single-cell datasets, with minimal resources using SQL that's powered by the #DuckDb database engine. #SingleCell 🧬 🖥️ 🖖
github.com/ArpiarSaunde...
github.com/ArpiarSaunde...
GitHub - ArpiarSaundersLab/annsql: The AnnSQL package enables SQL based queries on AnnData objects.
The AnnSQL package enables SQL based queries on AnnData objects. - ArpiarSaundersLab/annsql
github.com
March 26, 2025 at 5:22 PM
Please check out AnnSQL v1 if you’re working with large single-cell/nucleus RNA-seq datasets! Blazing fast! New features!
Reposted by Dr. Arpiar Saunders
We need to make sure that everyone understands how important science is for EVERYONE not just for scientists...
Get in dorks, we're going protesting!
STAND UP FOR SCIENCE WITH US ON MARCH 7TH, 2025
WASHINGTON DC AND EVERY STATE CAPITOL
Because science is for everyone!
Find us at www.standupforscience2025.org
#standupforscience2025 #scienceforall #sciencenotsilence
STAND UP FOR SCIENCE WITH US ON MARCH 7TH, 2025
WASHINGTON DC AND EVERY STATE CAPITOL
Because science is for everyone!
Find us at www.standupforscience2025.org
#standupforscience2025 #scienceforall #sciencenotsilence
February 22, 2025 at 5:42 PM
We need to make sure that everyone understands how important science is for EVERYONE not just for scientists...
Reposted by Dr. Arpiar Saunders
Deep and thoughtful reporting on the crises of the NIH funding and review blocks. Share locally, share widely. And make sure your reps know!
www.washingtonpost.com/science/2025...
www.washingtonpost.com/science/2025...
Scientists warn of long-term damage as Trump’s orders slow research
By blocking announcements in the Federal Register, the administration is keeping experts from meeting to evaluate funding proposals.
www.washingtonpost.com
February 22, 2025 at 5:18 PM
Deep and thoughtful reporting on the crises of the NIH funding and review blocks. Share locally, share widely. And make sure your reps know!
www.washingtonpost.com/science/2025...
www.washingtonpost.com/science/2025...
Reposted by Dr. Arpiar Saunders
The National Institutes of Health had to stop considering new grant applications, delaying funding for research into diseases ranging from heart disease and cancer to Alzheimer's and allergies.
NIH funding freeze stalls applications on $1.5 billion in medical research funds
The National Institutes of Health had to stop considering new grant applications, delaying funding for research into diseases ranging from heart disease and cancer to Alzheimer's and allergies.
www.npr.org
February 22, 2025 at 6:39 PM
The National Institutes of Health had to stop considering new grant applications, delaying funding for research into diseases ranging from heart disease and cancer to Alzheimer's and allergies.
Reposted by Dr. Arpiar Saunders
If you are a journalist--this should be your biggest story. Musk is denying hope to patients who have exhausted all other options 🧪
February 17, 2025 at 7:33 PM
If you are a journalist--this should be your biggest story. Musk is denying hope to patients who have exhausted all other options 🧪
Reposted by Dr. Arpiar Saunders
Reposted by Dr. Arpiar Saunders
I have been talking to the media, Time, Fortune, NBC, etc., to explain how the onslaught on science and NIH will impact the health of all Americans. Everyone knows someone who has cancer, heart disease, or depression. Spread the word about how cutting science impacts all.
time.com/7216299/nih-...
time.com/7216299/nih-...
Experts Call NIH Budget Cuts an 'Apocalypse' for Science
The reductions target indirect costs that cover administrative and equipment costs.
time.com
February 15, 2025 at 9:28 PM
I have been talking to the media, Time, Fortune, NBC, etc., to explain how the onslaught on science and NIH will impact the health of all Americans. Everyone knows someone who has cancer, heart disease, or depression. Spread the word about how cutting science impacts all.
time.com/7216299/nih-...
time.com/7216299/nih-...
Reposted by Dr. Arpiar Saunders
not paying indirect costs for research is like only paying the players in the Super Bowl.
can't have a Super Bowl without coaches, referees, security, janitors, announcers, stadium staff, and a stadium - and you can't have research without supporting people and facilities
can't have a Super Bowl without coaches, referees, security, janitors, announcers, stadium staff, and a stadium - and you can't have research without supporting people and facilities
February 9, 2025 at 11:00 PM
not paying indirect costs for research is like only paying the players in the Super Bowl.
can't have a Super Bowl without coaches, referees, security, janitors, announcers, stadium staff, and a stadium - and you can't have research without supporting people and facilities
can't have a Super Bowl without coaches, referees, security, janitors, announcers, stadium staff, and a stadium - and you can't have research without supporting people and facilities
Reposted by Dr. Arpiar Saunders
Apologies for this long post I put together to explain to non-scientists the impact of NIH cuts: Last night, an “atomic bomb” was dropped on the biomedical science community. We were informed that effective immediately, indirect costs on NIH grants (both current and future) would be fixed at 15%.
February 8, 2025 at 10:32 PM
Apologies for this long post I put together to explain to non-scientists the impact of NIH cuts: Last night, an “atomic bomb” was dropped on the biomedical science community. We were informed that effective immediately, indirect costs on NIH grants (both current and future) would be fixed at 15%.