Mary Mirvis
@marymirvis.bsky.social
mesoscale structural cell bio :: cell anatomy, organelle systems, synthesis, language, interdisciplinarity :: PD @UCSF @wallaceucsf.bsky.social :: toddler mama :: mary.mirv.is
Any other cell biologists into meta-research, synthesis, HPS or vice versa? HMU
Any other cell biologists into meta-research, synthesis, HPS or vice versa? HMU
Pinned
Mary Mirvis
@marymirvis.bsky.social
· Apr 19
A scoping study of the whole-cell imaging literature: a foundational corpus, potential for mesoscale data synthesis, and implications for standardization of an emerging field
The level of cellular organization bridging the mesoscale and whole-cell scale is coming into focus as a new frontier in cell biology. Great progress has been made in unraveling the complex physical a...
www.biorxiv.org
New(ish) preprint! 📰What whole-cell patterns emerge from the arrangement, morphologies, and interactions of organelles in the 3D space of the cell? What would we see if we could gather ALL the whole-cell reconstruction data that's out there in one place? www.biorxiv.org/content/10.1...
🧵 1/11
🧵 1/11
Reposted by Mary Mirvis
#newpost, exploring an exciting meta-science movement called #nightscience! Thanks @marymirvis.bsky.social for the resource!
Update: The messy middle meets ‘Night Science’
Exploring an exciting meta-science movement...
thebreakthroughlogs.substack.com
November 2, 2025 at 3:38 PM
#newpost, exploring an exciting meta-science movement called #nightscience! Thanks @marymirvis.bsky.social for the resource!
Reposted by Mary Mirvis
Your go-to tutorial for simulating mesoscale membranes is here. Look no further for:
-Understanding the state of the field
-A guide for creating new models for your science
-Hands-on tutorials to simulate your very own membranes
See tinyurl.com/punk3tcu and the below 🧵 start your journey 💻
-Understanding the state of the field
-A guide for creating new models for your science
-Hands-on tutorials to simulate your very own membranes
See tinyurl.com/punk3tcu and the below 🧵 start your journey 💻
October 22, 2025 at 2:21 PM
Your go-to tutorial for simulating mesoscale membranes is here. Look no further for:
-Understanding the state of the field
-A guide for creating new models for your science
-Hands-on tutorials to simulate your very own membranes
See tinyurl.com/punk3tcu and the below 🧵 start your journey 💻
-Understanding the state of the field
-A guide for creating new models for your science
-Hands-on tutorials to simulate your very own membranes
See tinyurl.com/punk3tcu and the below 🧵 start your journey 💻
Reposted by Mary Mirvis
In another exciting development our new preprint is online:
www.biorxiv.org/cgi/content/...
This is the work of my brilliant graduate student Katerina Kourkoulou in collaboration with Maggie Liu and Arnold Mathijssen. Here is a video of the subject of our study:
www.biorxiv.org/cgi/content/...
This is the work of my brilliant graduate student Katerina Kourkoulou in collaboration with Maggie Liu and Arnold Mathijssen. Here is a video of the subject of our study:
September 18, 2025 at 6:47 AM
In another exciting development our new preprint is online:
www.biorxiv.org/cgi/content/...
This is the work of my brilliant graduate student Katerina Kourkoulou in collaboration with Maggie Liu and Arnold Mathijssen. Here is a video of the subject of our study:
www.biorxiv.org/cgi/content/...
This is the work of my brilliant graduate student Katerina Kourkoulou in collaboration with Maggie Liu and Arnold Mathijssen. Here is a video of the subject of our study:
Reposted by Mary Mirvis
Metascience 2025 recordings are now available! #Metascience25 gathered researchers, funders, policymakers & more to explore how the research process can improve. The program included preconference symposia & plenary sessions on topics from policy change to AI in research.
🎥 cassyni.com/s/metasc...
🎥 cassyni.com/s/metasc...
Cassyni | Science starts with a seminar
Seamlessly organise, run and publish academic research seminars. Get started in minutes.
cassyni.com
August 12, 2025 at 4:03 PM
Metascience 2025 recordings are now available! #Metascience25 gathered researchers, funders, policymakers & more to explore how the research process can improve. The program included preconference symposia & plenary sessions on topics from policy change to AI in research.
🎥 cassyni.com/s/metasc...
🎥 cassyni.com/s/metasc...
Reposted by Mary Mirvis
📢 Abstract submission deadline reminder for 'Cell biology of the nucleus'!
Before packing your bags and leaving for your summer vacation, there is one important task left to do: submit your abstract for #EESNucleus ✍️
Deadline is 26 August: https://s.embl.org/ees25-07-bl
Before packing your bags and leaving for your summer vacation, there is one important task left to do: submit your abstract for #EESNucleus ✍️
Deadline is 26 August: https://s.embl.org/ees25-07-bl
July 31, 2025 at 12:30 PM
📢 Abstract submission deadline reminder for 'Cell biology of the nucleus'!
Before packing your bags and leaving for your summer vacation, there is one important task left to do: submit your abstract for #EESNucleus ✍️
Deadline is 26 August: https://s.embl.org/ees25-07-bl
Before packing your bags and leaving for your summer vacation, there is one important task left to do: submit your abstract for #EESNucleus ✍️
Deadline is 26 August: https://s.embl.org/ees25-07-bl
So excited to be in Heidelberg for www.embl.org/about/info/c... ! This is going to be an awesome meeting, been looking forward to it for months! #EESTCBio
Theory and concepts in biology
www.embl.org
May 6, 2025 at 11:37 AM
So excited to be in Heidelberg for www.embl.org/about/info/c... ! This is going to be an awesome meeting, been looking forward to it for months! #EESTCBio
Reposted by Mary Mirvis
Unlawful grant terminations are harming young scientists and threatening innovation. ASCB joins leaders calling for immediate funding restoration.
www.ascb.org/society-news...
www.ascb.org/society-news...
Leading Life Science Organizations: Unlawful Grant Terminations Pose Grave Threat to America’s Innovation Pipeline - ASCB
Amicus Brief Filed in Support of Suit Calling for Immediate Funding Restoration WASHINGTON, DC – Four leading life science organizations, including the ASCB, filed an amicus brief today asking the cou...
www.ascb.org
May 2, 2025 at 7:03 PM
Unlawful grant terminations are harming young scientists and threatening innovation. ASCB joins leaders calling for immediate funding restoration.
www.ascb.org/society-news...
www.ascb.org/society-news...
Reposted by Mary Mirvis
🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
Surface morphometrics reveals local membrane thickness variation in organellar subcompartments https://www.biorxiv.org/content/10.1101/2025.04.30.651574v1
May 1, 2025 at 7:42 PM
🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.
Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science
I’ll be there! Can’t wait!
Just one week to go ⏳ until the "Cellular Interfaces Across Scales: From Molecules to Tissue Dynamics" meeting @sfb1348.bsky.social @uni-muenster.de
We can't wait to see you there!
crc1348-conference.ycode.site
#DynamicCellularInterfaces #Münster
We can't wait to see you there!
crc1348-conference.ycode.site
#DynamicCellularInterfaces #Münster
April 29, 2025 at 3:48 PM
I’ll be there! Can’t wait!
Losing MOSAIC is such a senseless gut punch to so many deserving people like my lab mate @aralbright.bsky.social and science as a whole.
www.npr.org/sections/sho...
www.npr.org/sections/sho...
As a diversity grant dies, young scientists fear it will haunt their careers
The Trump administration defunded the National Institute of Health's MOSAIC grant program, which launched the careers of scientists from diverse backgrounds.
www.npr.org
April 28, 2025 at 1:19 PM
Losing MOSAIC is such a senseless gut punch to so many deserving people like my lab mate @aralbright.bsky.social and science as a whole.
www.npr.org/sections/sho...
www.npr.org/sections/sho...
Reposted by Mary Mirvis
For #FluorescenceFriday, a GFP reporter shows nuclei (fire) nestled between lots of lipid droplets in this set of adipocytes 🔬 #Microscopy #CellBiology
April 25, 2025 at 3:29 PM
For #FluorescenceFriday, a GFP reporter shows nuclei (fire) nestled between lots of lipid droplets in this set of adipocytes 🔬 #Microscopy #CellBiology
Reposted by Mary Mirvis
This is incredibly cool: if you search for a condition that’s affected your family, the site returns stats on how much NIH has done for that disease, *and* a contact form for reaching out to tell your Members of Congress why you want to see them defend NIH.
Pass it on!
Pass it on!
April 21, 2025 at 1:06 PM
This is incredibly cool: if you search for a condition that’s affected your family, the site returns stats on how much NIH has done for that disease, *and* a contact form for reaching out to tell your Members of Congress why you want to see them defend NIH.
Pass it on!
Pass it on!
Reposted by Mary Mirvis
ACTION ITEM-----ACTION ITEM
Implementation of Schedule F
This is what a lot of us have been worried about.
This allows for many civil service positions to replaced with political appointees. This could include NIH institute directors and even POs.
BUT THERE IS A COMMENT PERIOD...
1/n
Implementation of Schedule F
This is what a lot of us have been worried about.
This allows for many civil service positions to replaced with political appointees. This could include NIH institute directors and even POs.
BUT THERE IS A COMMENT PERIOD...
1/n
the word alert is in a purple circle
ALT: the word alert is in a purple circle
media.tenor.com
April 23, 2025 at 6:03 PM
ACTION ITEM-----ACTION ITEM
Implementation of Schedule F
This is what a lot of us have been worried about.
This allows for many civil service positions to replaced with political appointees. This could include NIH institute directors and even POs.
BUT THERE IS A COMMENT PERIOD...
1/n
Implementation of Schedule F
This is what a lot of us have been worried about.
This allows for many civil service positions to replaced with political appointees. This could include NIH institute directors and even POs.
BUT THERE IS A COMMENT PERIOD...
1/n
Reposted by Mary Mirvis
A dream come true: the first expansion microscopy images of C. flexa 🤩 Generated by Mylan & Uzuki who learned from the best (@hiralshah.bsky.social @gautamdey.bsky.social @dudinlab.bsky.social). We will learn so much from these!
April 22, 2025 at 4:36 PM
A dream come true: the first expansion microscopy images of C. flexa 🤩 Generated by Mylan & Uzuki who learned from the best (@hiralshah.bsky.social @gautamdey.bsky.social @dudinlab.bsky.social). We will learn so much from these!
Reposted by Mary Mirvis
Come to the Annual Fletcher Lab Artshow on Friday May 9th, 2025! We host this event yearly as an opportunity for folks to display their artwork, come together with wine and cheese, and admire artwork!
April 21, 2025 at 8:15 PM
Come to the Annual Fletcher Lab Artshow on Friday May 9th, 2025! We host this event yearly as an opportunity for folks to display their artwork, come together with wine and cheese, and admire artwork!
Reposted by Mary Mirvis
Many thanks to my co-author Brooke Weingard, my advisors Steve Goodman & @wallaceucsf.bsky.social , my Marshall lab mates and many others who have been supportive of this sort of oddball project. Now more than ever, I'm humbled by the absolute privilege of doing science! thanks for reading!
11/11
11/11
April 19, 2025 at 4:12 PM
Many thanks to my co-author Brooke Weingard, my advisors Steve Goodman & @wallaceucsf.bsky.social , my Marshall lab mates and many others who have been supportive of this sort of oddball project. Now more than ever, I'm humbled by the absolute privilege of doing science! thanks for reading!
11/11
11/11
Reposted by Mary Mirvis
I'm excited for this chance to highlight the power of rigorous evidence synthesis for fundamental cell biology, something I hope to see more of and help develop in the future! If you're interested in the intersection of evidence/knowledge synthesis & fundamental bio please connect with me!
10/11
10/11
April 19, 2025 at 4:11 PM
I'm excited for this chance to highlight the power of rigorous evidence synthesis for fundamental cell biology, something I hope to see more of and help develop in the future! If you're interested in the intersection of evidence/knowledge synthesis & fundamental bio please connect with me!
10/11
10/11
Reposted by Mary Mirvis
Stay tuned for part two of this story which will dive into the linguistic and conceptual basis of "cell anatomy" throughout the corpus. We plan on keeping this corpus up to date & expanding its scope as a collaborative interactive resource (we call it a "living corpus" as a running joke )
9/11
9/11
a statue of a zombie is kneeling down with his arm outstretched
Alt: a statue of a zombie is kneeling down with his arm outstretched
media.tenor.com
April 19, 2025 at 4:10 PM
Stay tuned for part two of this story which will dive into the linguistic and conceptual basis of "cell anatomy" throughout the corpus. We plan on keeping this corpus up to date & expanding its scope as a collaborative interactive resource (we call it a "living corpus" as a running joke )
9/11
9/11
Reposted by Mary Mirvis
We believe that the acceleration of whole-cell imaging tech & data in recent years represents the early stages of an emerging field. Hopefully this work will serve as a useful tool and catalyst for community discourse to standardize technical & conceptual norms.
8/11
8/11
April 19, 2025 at 4:08 PM
We believe that the acceleration of whole-cell imaging tech & data in recent years represents the early stages of an emerging field. Hopefully this work will serve as a useful tool and catalyst for community discourse to standardize technical & conceptual norms.
8/11
8/11
Reposted by Mary Mirvis
But there are biases in the dataset! Namely small sample sizes, small cell types, non-mammalian cell types. This is a reflection of how technically challenging and costly whole-cell data is, even further highlighting the value of pooling datasets for research synthesis work.
7/11
7/11
April 19, 2025 at 4:07 PM
But there are biases in the dataset! Namely small sample sizes, small cell types, non-mammalian cell types. This is a reflection of how technically challenging and costly whole-cell data is, even further highlighting the value of pooling datasets for research synthesis work.
7/11
7/11
Reposted by Mary Mirvis
This lights the way for lots of followup work e.g., which organelle-organelle relationships are more robust vs variable across perturbations? what geometric rules govern whole-cell patterns in eukaryotes?
6/11
6/11
April 19, 2025 at 4:06 PM
This lights the way for lots of followup work e.g., which organelle-organelle relationships are more robust vs variable across perturbations? what geometric rules govern whole-cell patterns in eukaryotes?
6/11
6/11
Reposted by Mary Mirvis
Our corpus includes 89 studies published bw 2004-2024 screened from >11000 Pubmed results: nearly 1700 individual cells, 118 distinct datasets in 80 cell types using 13 volumetric imaging modalities, 71 comparative conditions, and at least 12 types of quantitative analyses.
5/11
5/11
April 19, 2025 at 4:05 PM
Our corpus includes 89 studies published bw 2004-2024 screened from >11000 Pubmed results: nearly 1700 individual cells, 118 distinct datasets in 80 cell types using 13 volumetric imaging modalities, 71 comparative conditions, and at least 12 types of quantitative analyses.
5/11
5/11
Reposted by Mary Mirvis
To be included, studies had to show images and/or report measurements taken from complete single-cell reconstructions containing at least two clearly marked organelles in a eukaryotic system.
4/11
4/11
April 19, 2025 at 4:02 PM
To be included, studies had to show images and/or report measurements taken from complete single-cell reconstructions containing at least two clearly marked organelles in a eukaryotic system.
4/11
4/11
Reposted by Mary Mirvis
Our scoping review methodology involves a robust search strategy for PubMed, strict inclusion criteria, and multiple rounds of screening and subsequent data extraction performed by multiple researchers in parallel, all fully reported and reproducible.
3/11
3/11
a cartoon of patrick and spongebob standing next to each other on a table
Alt: a cartoon of patrick and spongebob standing next to each other on a table
media.tenor.com
April 19, 2025 at 4:01 PM
Our scoping review methodology involves a robust search strategy for PubMed, strict inclusion criteria, and multiple rounds of screening and subsequent data extraction performed by multiple researchers in parallel, all fully reported and reproducible.
3/11
3/11
Reposted by Mary Mirvis
We devised a synthesis approach to comprehensively curate whole-cell imaging data across the literature to enable comparative analysis of anatomical patterns across cell types & contexts.
2/11
2/11
a group of pokemon standing next to each other with gotta catch 'em all written on the bottom
Alt: a group of pokemon standing next to each other with gotta catch 'em all written on the bottom
media.tenor.com
April 19, 2025 at 3:59 PM
We devised a synthesis approach to comprehensively curate whole-cell imaging data across the literature to enable comparative analysis of anatomical patterns across cell types & contexts.
2/11
2/11