Aydogan Lab
@aydoganlab.bsky.social
Columbia University & HHMI
We study principles of biological time control with a focus on the emerging concept of autonomous clocks. See more at: aydoganlab.com
We study principles of biological time control with a focus on the emerging concept of autonomous clocks. See more at: aydoganlab.com
Reposted by Aydogan Lab
Proximity labeling users: check out this study by @zhixingchen2.bsky.social and Peng Zou, which establishes how much contact-dependence vs. diffusion is responsible for biotinylation — tl;dr TurboID has a much smaller effective radius! www.nature.com/articles/s41... 1/2
Spatial barcoding reveals reaction radii and contact-dependent mechanism of proximity labeling - Nature Chemical Biology
A DNA nanoruler platform enables precise measurement of the labeling radii of TurboID and APEX2, uncovering their contact-dependent mechanisms. These findings redefine the enzymology of proximity labe...
www.nature.com
December 31, 2025 at 5:53 PM
Proximity labeling users: check out this study by @zhixingchen2.bsky.social and Peng Zou, which establishes how much contact-dependence vs. diffusion is responsible for biotinylation — tl;dr TurboID has a much smaller effective radius! www.nature.com/articles/s41... 1/2
Reposted by Aydogan Lab
Modern biology research is biased towards investigating genes that are widely conserved and present in humans. What about genes that ARE widely conserved but NOT present in humans? Can genes missing from humans tell us something about what makes our biology different from that of other animals? 1/8
December 31, 2025 at 7:29 PM
Modern biology research is biased towards investigating genes that are widely conserved and present in humans. What about genes that ARE widely conserved but NOT present in humans? Can genes missing from humans tell us something about what makes our biology different from that of other animals? 1/8
Reposted by Aydogan Lab
Bad antibodies are such a huge problem. It’s not just the money wasted on buying them. It’s the amount of time spent trying to validate them.
Many articles reported using an antibody ... that didn’t even bind the key protein in Laflamme’s testing. Those articles had been cited over 3,000 times.
A key question is:
◼️ 𝐂𝐚𝐧 𝐩𝐫𝐨𝐭𝐞𝐢𝐧 𝐛𝐢𝐧𝐝𝐞𝐫𝐬 𝐚𝐜𝐡𝐢𝐞𝐯𝐞 𝐡𝐢𝐠𝐡 𝐬𝐩𝐞𝐜𝐢𝐟𝐢𝐜𝐢𝐭𝐲 𝐟𝐨𝐫 𝐞𝐯𝐞𝐫𝐲 𝐞𝐩𝐢𝐭𝐨𝐩𝐞 & 𝐩𝐫𝐨𝐭𝐞𝐨𝐟𝐨𝐫𝐦?
A key question is:
◼️ 𝐂𝐚𝐧 𝐩𝐫𝐨𝐭𝐞𝐢𝐧 𝐛𝐢𝐧𝐝𝐞𝐫𝐬 𝐚𝐜𝐡𝐢𝐞𝐯𝐞 𝐡𝐢𝐠𝐡 𝐬𝐩𝐞𝐜𝐢𝐟𝐢𝐜𝐢𝐭𝐲 𝐟𝐨𝐫 𝐞𝐯𝐞𝐫𝐲 𝐞𝐩𝐢𝐭𝐨𝐩𝐞 & 𝐩𝐫𝐨𝐭𝐞𝐨𝐟𝐨𝐫𝐦?
December 30, 2025 at 3:04 PM
Bad antibodies are such a huge problem. It’s not just the money wasted on buying them. It’s the amount of time spent trying to validate them.
Reposted by Aydogan Lab
I was today years old when I learned that there is a superb (freely available) documentary from 1961 on early zebrafish development by J.V. Durden. collection.nfb.ca/film/embryon... (1/2)
December 13, 2025 at 11:48 AM
I was today years old when I learned that there is a superb (freely available) documentary from 1961 on early zebrafish development by J.V. Durden. collection.nfb.ca/film/embryon... (1/2)
Reposted by Aydogan Lab
#Mastodon, the Command Center for Large-Scale Lineage-Tracing Microscopy Datasets, is finally heading for publication (well, let's see). To #cite or not to cite shall no longer be the question 🙃, because the #preprint. Software is available in every #Fiji near you.
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
December 13, 2025 at 6:14 PM
#Mastodon, the Command Center for Large-Scale Lineage-Tracing Microscopy Datasets, is finally heading for publication (well, let's see). To #cite or not to cite shall no longer be the question 🙃, because the #preprint. Software is available in every #Fiji near you.
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
I was just wondering about this the other day!! A timely print!
Can one map the genome-wide binding (1) and its protein partners (2) simultaneously from the same sample?
Yes, one can. with CUT&ID ✂️🪪
Spearheaded — singlehandedly — by @annanordin.bsky.social
No need of transgenesis, cloning and overexpression.
Check it out, it's fast and its works.
Yes, one can. with CUT&ID ✂️🪪
Spearheaded — singlehandedly — by @annanordin.bsky.social
No need of transgenesis, cloning and overexpression.
Check it out, it's fast and its works.
December 13, 2025 at 1:21 PM
I was just wondering about this the other day!! A timely print!
Didn’t we already know that for along time?? See this classic McIntosh piece from 2001 (Figure 2C)
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
December 12, 2025 at 12:47 PM
Didn’t we already know that for along time?? See this classic McIntosh piece from 2001 (Figure 2C)
www.pnas.org/doi/10.1073/...
www.pnas.org/doi/10.1073/...
The final night at #CellBio25! Ended the day with wonderful talks at the centrosomes in cell division session - the field is strong 💪 💪 Sponsored by @jcellsci.bsky.social
& @nikonmicroanz.bsky.social!
Thanks to the amazing organizers Tim Megraw, Renata Basto, @lablerit.bsky.social & Chad Pearson!
& @nikonmicroanz.bsky.social!
Thanks to the amazing organizers Tim Megraw, Renata Basto, @lablerit.bsky.social & Chad Pearson!
December 10, 2025 at 3:02 AM
The final night at #CellBio25! Ended the day with wonderful talks at the centrosomes in cell division session - the field is strong 💪 💪 Sponsored by @jcellsci.bsky.social
& @nikonmicroanz.bsky.social!
Thanks to the amazing organizers Tim Megraw, Renata Basto, @lablerit.bsky.social & Chad Pearson!
& @nikonmicroanz.bsky.social!
Thanks to the amazing organizers Tim Megraw, Renata Basto, @lablerit.bsky.social & Chad Pearson!
Reposted by Aydogan Lab
Oxidative phosphorylation complexes contain subunits encoded by both the nuclear and mitochondrial genomes. How do cells coordinate the synthesis and assembly of these complexes at the inner membrane? We teamed up with Martin Ott (@mitolab.bsky.social) to address this in two recent papers.
December 3, 2025 at 8:42 PM
Oxidative phosphorylation complexes contain subunits encoded by both the nuclear and mitochondrial genomes. How do cells coordinate the synthesis and assembly of these complexes at the inner membrane? We teamed up with Martin Ott (@mitolab.bsky.social) to address this in two recent papers.
Reposted by Aydogan Lab
How to keep in step when your (protein) partner speeds up…
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Rapid compensatory evolution within a multiprotein complex preserves telomere integrity
Intragenomic conflict with selfish genetic elements spurs adaptive changes in subunits of essential multiprotein complexes. Whether and how these adaptive changes disrupt interactions within such comp...
www.science.org
November 28, 2025 at 5:22 PM
How to keep in step when your (protein) partner speeds up…
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Here we investigated the adaptive remodeling of a protein-protein interaction surface essential for telomere protection.
Congrats to whole team!
www.science.org/doi/10.1126/...
Reposted by Aydogan Lab
@hhmi.org Summer Undergraduate Research Experience - #CechFellows named in honor of Prof Tom Cech
Deadline to apply: 12/22/2025
Spend 9 weeks in a paid, mentored biomedical research experience in an HHMI lab. See you next summer!!!
www.hhmi.org/programs/cec...
Deadline to apply: 12/22/2025
Spend 9 weeks in a paid, mentored biomedical research experience in an HHMI lab. See you next summer!!!
www.hhmi.org/programs/cec...
Summer Undergraduate Research Experience | HHMI
The Cech Fellows Program is a paid, nine-week summer research experience empowering the next generation of scientific leaders.
www.hhmi.org
November 22, 2025 at 4:15 PM
@hhmi.org Summer Undergraduate Research Experience - #CechFellows named in honor of Prof Tom Cech
Deadline to apply: 12/22/2025
Spend 9 weeks in a paid, mentored biomedical research experience in an HHMI lab. See you next summer!!!
www.hhmi.org/programs/cec...
Deadline to apply: 12/22/2025
Spend 9 weeks in a paid, mentored biomedical research experience in an HHMI lab. See you next summer!!!
www.hhmi.org/programs/cec...
Reposted by Aydogan Lab
SAVE THE DATE! Stoked to organize the 2026 Santa Cruz Developmental Biology Meeting with @rashmi-priya.bsky.social, @lowelab.bsky.social, and Shelbi Russell. Come learn about Biomedicine, Biomechanics, and the Biosphere, August 24-28, 2026. Registration dates, etc., coming soon! Please RT
November 19, 2025 at 8:23 PM
SAVE THE DATE! Stoked to organize the 2026 Santa Cruz Developmental Biology Meeting with @rashmi-priya.bsky.social, @lowelab.bsky.social, and Shelbi Russell. Come learn about Biomedicine, Biomechanics, and the Biosphere, August 24-28, 2026. Registration dates, etc., coming soon! Please RT
Reposted by Aydogan Lab
🧬 List of 2026 DNA repair and genome stability conferences, now updated. Please let me know if there is anything missing!
docs.google.com/spreadsheets...
docs.google.com/spreadsheets...
DNA REPAIR/GENOME STABILITY CONFERENCES
docs.google.com
November 9, 2025 at 10:33 PM
🧬 List of 2026 DNA repair and genome stability conferences, now updated. Please let me know if there is anything missing!
docs.google.com/spreadsheets...
docs.google.com/spreadsheets...
Reposted by Aydogan Lab
New paper in Science identifying adipogenin as a critical seipin regulator in LD biogenesis. So glad our lab could help a little in this monumental study. Congrats to all authors!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Adipogenin promotes the development of lipid droplets by binding a dodecameric seipin complex
The microprotein adipogenin (Adig) is predominantly expressed in adipose tissues. Here, we found that Adig interacts with seipin to form a stable, rigid complex. We present the structure of the seipin...
www.science.org
November 6, 2025 at 7:47 PM
New paper in Science identifying adipogenin as a critical seipin regulator in LD biogenesis. So glad our lab could help a little in this monumental study. Congrats to all authors!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Aydogan Lab
Happy Halloween! 🎃 Continuing my tradition of Nobel-prize-winning discoveries, this year's costume is Ubx!!!
It honors Edward B. Lewis, Christiane Nüsslein-Volhard, & Eric Wieschaus's work on the genetics of development 🧬🪰
(Please clap for the accuracy of those wing veins on *both* pairs of wings.)
It honors Edward B. Lewis, Christiane Nüsslein-Volhard, & Eric Wieschaus's work on the genetics of development 🧬🪰
(Please clap for the accuracy of those wing veins on *both* pairs of wings.)
October 31, 2025 at 5:23 PM
Happy Halloween! 🎃 Continuing my tradition of Nobel-prize-winning discoveries, this year's costume is Ubx!!!
It honors Edward B. Lewis, Christiane Nüsslein-Volhard, & Eric Wieschaus's work on the genetics of development 🧬🪰
(Please clap for the accuracy of those wing veins on *both* pairs of wings.)
It honors Edward B. Lewis, Christiane Nüsslein-Volhard, & Eric Wieschaus's work on the genetics of development 🧬🪰
(Please clap for the accuracy of those wing veins on *both* pairs of wings.)
Reposted by Aydogan Lab
Reposted by Aydogan Lab
📣 We are moving to Barcelona to join the amazing @crg.eu and explore how centrosomes & cilia work, evolve & respond to the environment. We are looking for
PhD students www.crg.eu/en/content/t...
Postdocs gimm.pt/jobs/postdoc...
Other calls to open, also for an experienced lab manager.
Get in touch!
PhD students www.crg.eu/en/content/t...
Postdocs gimm.pt/jobs/postdoc...
Other calls to open, also for an experienced lab manager.
Get in touch!
October 30, 2025 at 1:15 PM
📣 We are moving to Barcelona to join the amazing @crg.eu and explore how centrosomes & cilia work, evolve & respond to the environment. We are looking for
PhD students www.crg.eu/en/content/t...
Postdocs gimm.pt/jobs/postdoc...
Other calls to open, also for an experienced lab manager.
Get in touch!
PhD students www.crg.eu/en/content/t...
Postdocs gimm.pt/jobs/postdoc...
Other calls to open, also for an experienced lab manager.
Get in touch!
Reposted by Aydogan Lab
Reposted by Aydogan Lab
Great Job - Great Colleagues - Great Science👍
Help us pick the next generation of @hhmi.org Investigators, Freeman Hrabowski Scholars, Hanna Gray Fellows, Gilliam Fellows
Relocation to DC is required, perfect for academic PIs looking for their next chapter
hhmi.wd1.myworkdayjobs.com/External/job...
Help us pick the next generation of @hhmi.org Investigators, Freeman Hrabowski Scholars, Hanna Gray Fellows, Gilliam Fellows
Relocation to DC is required, perfect for academic PIs looking for their next chapter
hhmi.wd1.myworkdayjobs.com/External/job...
Senior Director - Scientific Officer
Primary Work Address: 4000 Jones Bridge Road, Chevy Chase, MD, 20815 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute (HHMI) advances the disco...
hhmi.wd1.myworkdayjobs.com
October 9, 2025 at 9:48 PM
Great Job - Great Colleagues - Great Science👍
Help us pick the next generation of @hhmi.org Investigators, Freeman Hrabowski Scholars, Hanna Gray Fellows, Gilliam Fellows
Relocation to DC is required, perfect for academic PIs looking for their next chapter
hhmi.wd1.myworkdayjobs.com/External/job...
Help us pick the next generation of @hhmi.org Investigators, Freeman Hrabowski Scholars, Hanna Gray Fellows, Gilliam Fellows
Relocation to DC is required, perfect for academic PIs looking for their next chapter
hhmi.wd1.myworkdayjobs.com/External/job...
Reposted by Aydogan Lab
I’m extremely honored to be a recipient of the NIH Director’s Pioneer Award!
Congratulations to @ishmailsaboor.bsky.social on receiving the NIH Director’s Pioneer Award, celebrating “scientists with outstanding records of creativity.” His lab will explore how the sense of touch can help build relationships. 🫶🧠💡
See zuckermaninstitute.columbia.edu/zuckerman-in...
See zuckermaninstitute.columbia.edu/zuckerman-in...
October 8, 2025 at 8:45 PM
I’m extremely honored to be a recipient of the NIH Director’s Pioneer Award!
Reposted by Aydogan Lab
Now published! Our paper on:
(1) Accurate sequencing of sperm at scale
(2) Positive selection of spermatogenesis driver mutations across the exome
(3) Offspring disease risks from male reproductive aging
[1/n]
www.nature.com/articles/s41...
(1) Accurate sequencing of sperm at scale
(2) Positive selection of spermatogenesis driver mutations across the exome
(3) Offspring disease risks from male reproductive aging
[1/n]
www.nature.com/articles/s41...
Sperm sequencing reveals extensive positive selection in the male germline - Nature
A combination of whole-genome NanoSeq with deep whole-exome and targeted NanoSeq is used to accurately characterize mutation rates and genes under positive selection in sperm cells.
www.nature.com
October 8, 2025 at 3:51 PM
Now published! Our paper on:
(1) Accurate sequencing of sperm at scale
(2) Positive selection of spermatogenesis driver mutations across the exome
(3) Offspring disease risks from male reproductive aging
[1/n]
www.nature.com/articles/s41...
(1) Accurate sequencing of sperm at scale
(2) Positive selection of spermatogenesis driver mutations across the exome
(3) Offspring disease risks from male reproductive aging
[1/n]
www.nature.com/articles/s41...
Reposted by Aydogan Lab
Neat trick if you polycolonal ab's suck. Incubate them with fixed cells with a KO of your protein of interest, then spin. Protocol here: www.med.upenn.edu/markslab/ass...
I was amazed how well it worked on first try (I'm sure that I can completely eliminate unspecific bands)
#WesternBlot #cellsky
I was amazed how well it worked on first try (I'm sure that I can completely eliminate unspecific bands)
#WesternBlot #cellsky
October 2, 2025 at 5:11 PM
Neat trick if you polycolonal ab's suck. Incubate them with fixed cells with a KO of your protein of interest, then spin. Protocol here: www.med.upenn.edu/markslab/ass...
I was amazed how well it worked on first try (I'm sure that I can completely eliminate unspecific bands)
#WesternBlot #cellsky
I was amazed how well it worked on first try (I'm sure that I can completely eliminate unspecific bands)
#WesternBlot #cellsky
Reposted by Aydogan Lab
What if the legendary psychologist and grandfather of behavioral economics, Daniel Kahneman took a sabbitical in a fly lab? How would the lab culture change?
Explored this imaginary scenario in a blog post @the-node.bsky.social
thenode.biologists.com/the-kahneman...
Explored this imaginary scenario in a blog post @the-node.bsky.social
thenode.biologists.com/the-kahneman...
The Kahneman Chronicles: Lessons from a Fly Lab - the Node
The Kahneman Chronicles #1: When a Nobel Laureate Fixed Our Lab's Scheduling Disasters Daniel Kahneman (1934-2024) was a legendary psychologist who
thenode.biologists.com
September 28, 2025 at 7:57 AM
What if the legendary psychologist and grandfather of behavioral economics, Daniel Kahneman took a sabbitical in a fly lab? How would the lab culture change?
Explored this imaginary scenario in a blog post @the-node.bsky.social
thenode.biologists.com/the-kahneman...
Explored this imaginary scenario in a blog post @the-node.bsky.social
thenode.biologists.com/the-kahneman...
Reposted by Aydogan Lab
Identification of optimal fluorophores for use in the Drosophila embryo by Timothy E Saunders and team: www.biorxiv.org/content/10.1...
September 30, 2025 at 2:43 PM
Identification of optimal fluorophores for use in the Drosophila embryo by Timothy E Saunders and team: www.biorxiv.org/content/10.1...
Reposted by Aydogan Lab
Excited to share that our paper on mitochondrial cardiolipin dynamics is published in @natcomms.nature.com today! We provide molecular explanations for unique aspects of mitochondrial morphology and the mechanisms underlying cardiolipin-related Barth Syndrome.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Cardiolipin dynamics promote membrane remodeling by mitochondrial OPA1 - Nature Communications
This study reveals how cardiolipin governs mitochondrial morphology by modulating the activity of human OPA1 and how its replacement by monolyso-cardiolipin, as observed in Barth syndrome, impacts mitochondrial membrane-shaping mechanisms.
www.nature.com
September 30, 2025 at 8:09 PM
Excited to share that our paper on mitochondrial cardiolipin dynamics is published in @natcomms.nature.com today! We provide molecular explanations for unique aspects of mitochondrial morphology and the mechanisms underlying cardiolipin-related Barth Syndrome.
www.nature.com/articles/s41...
www.nature.com/articles/s41...