Physical Biology of Developing Systems
@pbodslab.bsky.social
We are located at @mcmasteruniversity.bsky.social McMaster University Biology/Physics departments studying early vertebrate embryo patterning with quantitative tools!
www.physicalbiology.ca
posts by M. Fethullah Simsek.
www.physicalbiology.ca
posts by M. Fethullah Simsek.
Pinned
Principles of Development - An inquisitive journey into embryology -
This textbook covers key concepts of embryology and principles of development in an understandable but detailed enough pace for advanced undergraduate students. Intended audience is advanced (3rd/4th ...
ecampusontario.pressbooks.pub
An interdisciplinary #embryology book is out as #OER: @ecampusontario.bsky.social ecampusontario.pressbooks.pub/principlesof... A teamwork turned raw lecture recordings into a colloquial writeup. Please pass any feedback & critiques! @isdb.bsky.social @swedbo.bsky.social @socdevbio.bsky.social 🧪🔬
An interdisciplinary #embryology book is out as #OER: @ecampusontario.bsky.social ecampusontario.pressbooks.pub/principlesof... A teamwork turned raw lecture recordings into a colloquial writeup. Please pass any feedback & critiques! @isdb.bsky.social @swedbo.bsky.social @socdevbio.bsky.social 🧪🔬
Principles of Development - An inquisitive journey into embryology -
This textbook covers key concepts of embryology and principles of development in an understandable but detailed enough pace for advanced undergraduate students. Intended audience is advanced (3rd/4th ...
ecampusontario.pressbooks.pub
October 6, 2026 at 1:57 AM
An interdisciplinary #embryology book is out as #OER: @ecampusontario.bsky.social ecampusontario.pressbooks.pub/principlesof... A teamwork turned raw lecture recordings into a colloquial writeup. Please pass any feedback & critiques! @isdb.bsky.social @swedbo.bsky.social @socdevbio.bsky.social 🧪🔬
Lovely work! Congratulations 🎊
Do you work with microscopy images and segment to quantify or track? Do you study cell biology? development? Gather round! Let me tell you about FOCUS-3D, a segmentation algorithm that is fast, accurate and can be used on any model. We used it here to study zebrafish development. 🧪 (thread)
FOCUS‑3D: Robust, generalizable volumetric cell segmentation for three‑dimensional fluorescence microscopy
Understanding how cells establish spatial organization within tissues is a fundamental question in life sciences. While modern three-dimensional fluorescence microscopy captures large-volume tissue ar...
www.biorxiv.org
September 4, 2026 at 12:21 AM
Lovely work! Congratulations 🎊
Reposted by Physical Biology of Developing Systems
We’re hiring! The Biology department at McGill is hiring a tenure-track professor in Quantitative Cell Biology.
We’re looking for an outstanding researcher and educator to join our community.
Deadline: October 9
Info & application: mcgill.wd3.myworkdayjobs.com/McGill_Caree...
Please share!
We’re looking for an outstanding researcher and educator to join our community.
Deadline: October 9
Info & application: mcgill.wd3.myworkdayjobs.com/McGill_Caree...
Please share!
Assistant Professor in Quantitative Cell Biology - Department of Biology
Please refer to the How to Apply for a Job (for External Candidates) job aid for instructions on how to apply. If you are an active McGill employee (ie: currently in an active contract or position at ...
mcgill.wd3.myworkdayjobs.com
September 2, 2026 at 6:09 PM
We’re hiring! The Biology department at McGill is hiring a tenure-track professor in Quantitative Cell Biology.
We’re looking for an outstanding researcher and educator to join our community.
Deadline: October 9
Info & application: mcgill.wd3.myworkdayjobs.com/McGill_Caree...
Please share!
We’re looking for an outstanding researcher and educator to join our community.
Deadline: October 9
Info & application: mcgill.wd3.myworkdayjobs.com/McGill_Caree...
Please share!
Reposted by Physical Biology of Developing Systems
First published teamwork of the lab 🎉! We wrote a review about emerging concepts of how metabolism promotes, regulates and changes during gastrulation. We hope it will be useful for anyone interested in the emerging field of developmental metabolism. www.sciencedirect.com/science/arti...
A metabolic view of gastrulation: Coordinating signalling, epigenetics and morphogenesis
Gastrulation is the morphogenetic process by which the single-layered pluripotent epiblast is reorganised into the three germ layers and the basic bod…
www.sciencedirect.com
August 6, 2026 at 9:35 AM
First published teamwork of the lab 🎉! We wrote a review about emerging concepts of how metabolism promotes, regulates and changes during gastrulation. We hope it will be useful for anyone interested in the emerging field of developmental metabolism. www.sciencedirect.com/science/arti...
Reposted by Physical Biology of Developing Systems
hiiii everyone! my department @zoology.ubc.ca is hiring an assistant professor in cell and developmental biology! deadline is october 1! academicjobsonline.org/ajo/jobs/32408 // please share!!!!!
University of British Columbia, Department of Zoology
Job #AJO32408, Assistant Professor in Cell and Developmental Biology, Department of Zoology, University of British Columbia, Vancouver, British Columbia, CA
academicjobsonline.org
August 6, 2026 at 5:30 AM
hiiii everyone! my department @zoology.ubc.ca is hiring an assistant professor in cell and developmental biology! deadline is october 1! academicjobsonline.org/ajo/jobs/32408 // please share!!!!!
Single author work by Dr. Wieschaus with lovely microscopy 🧪🤩! from the discussion:Although powerful, the logic behind [mutant] approach is always indirect, given that the phenotype one sees is produced by the genes that remain, not the gene that was removed.
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Maternal patterning in early Drosophila embryos: how much information can single maternal gradients supply?
Highlighted Article: Comparison of the patterning capacity of Drosophila embryos that have only one of the three maternal gradients known to control anterior posterior patterning.
journals.biologists.com
July 28, 2026 at 1:28 AM
Single author work by Dr. Wieschaus with lovely microscopy 🧪🤩! from the discussion:Although powerful, the logic behind [mutant] approach is always indirect, given that the phenotype one sees is produced by the genes that remain, not the gene that was removed.
journals.biologists.com/dev/article/...
journals.biologists.com/dev/article/...
Reposted by Physical Biology of Developing Systems
Come join us! 🔬🐣 The Piacentino Lab at Johns Hopkins @hopkinsmedicine.bsky.social is recruiting a postdoc to study membrane lipids, cell migration, and invasion in neural crest and embryonic models! @socdevbio.bsky.social @ascbiology.bsky.social #devbiol #cellbio #lipids
July 21, 2026 at 3:24 PM
Come join us! 🔬🐣 The Piacentino Lab at Johns Hopkins @hopkinsmedicine.bsky.social is recruiting a postdoc to study membrane lipids, cell migration, and invasion in neural crest and embryonic models! @socdevbio.bsky.social @ascbiology.bsky.social #devbiol #cellbio #lipids
Reposted by Physical Biology of Developing Systems
Join us on a journey into the dynamics of cells during embryo development. We are offering a fully funded PhD position to investigate cell behavior using cutting-edge quantitative live imaging at the interface of Development, Immunity, and Tissue Biology.
embryobioimaging.com
embryobioimaging.com
July 2, 2026 at 11:15 PM
Join us on a journey into the dynamics of cells during embryo development. We are offering a fully funded PhD position to investigate cell behavior using cutting-edge quantitative live imaging at the interface of Development, Immunity, and Tissue Biology.
embryobioimaging.com
embryobioimaging.com
Most distant #organizer transplants arrived: #cells from ctenophore convince a cnidarian to make a second embryo axis! Organizers (possibly) are pushed back to eumetazoan ancestor... 🧪 www.nature.com/articles/s41...
A blastoporal organizer in a ctenophore - Nature
Experiments using the comb jelly Mnemiopsis leidyi and the sea anemone Nematostella vectensis reveal that the emergence of a core signalling pathway may have been a key innovation enabling the transit...
www.nature.com
June 20, 2026 at 5:31 AM
Most distant #organizer transplants arrived: #cells from ctenophore convince a cnidarian to make a second embryo axis! Organizers (possibly) are pushed back to eumetazoan ancestor... 🧪 www.nature.com/articles/s41...
Reposted by Physical Biology of Developing Systems
1 week to start🔥
New @focalplane.bsky.social webinar series focused on #CellMigration, register & join us▶️, it will be fun!
pls spread the word, in the next one, ECRs could apply to show their work ;)
▶️ to register: focalplane.biologists.com/2026/05/29/n... @dgz.bsky.social @the-node.bsky.social
New @focalplane.bsky.social webinar series focused on #CellMigration, register & join us▶️, it will be fun!
pls spread the word, in the next one, ECRs could apply to show their work ;)
▶️ to register: focalplane.biologists.com/2026/05/29/n... @dgz.bsky.social @the-node.bsky.social
June 4, 2026 at 8:29 PM
1 week to start🔥
New @focalplane.bsky.social webinar series focused on #CellMigration, register & join us▶️, it will be fun!
pls spread the word, in the next one, ECRs could apply to show their work ;)
▶️ to register: focalplane.biologists.com/2026/05/29/n... @dgz.bsky.social @the-node.bsky.social
New @focalplane.bsky.social webinar series focused on #CellMigration, register & join us▶️, it will be fun!
pls spread the word, in the next one, ECRs could apply to show their work ;)
▶️ to register: focalplane.biologists.com/2026/05/29/n... @dgz.bsky.social @the-node.bsky.social
Reposted by Physical Biology of Developing Systems
SAVE THE DATE for the 13th Canadian Developmental Biology Conference — March 7–10, 2027 — bringing together researchers, trainees, and innovators in developmental biology from across Canada and beyond.
May 22, 2026 at 3:55 PM
SAVE THE DATE for the 13th Canadian Developmental Biology Conference — March 7–10, 2027 — bringing together researchers, trainees, and innovators in developmental biology from across Canada and beyond.
Reposted by Physical Biology of Developing Systems
It's out! Happy to present ITEC, a semi supervised algorithm with an extremely low error rate that can track cells in files of any size (think Terabytes!). We used it in many organisms, including zebrafish, to study how organs form and linked it to gene expression www.biorxiv.org/content/10.6... +🧪
www.biorxiv.org
March 16, 2026 at 7:52 PM
It's out! Happy to present ITEC, a semi supervised algorithm with an extremely low error rate that can track cells in files of any size (think Terabytes!). We used it in many organisms, including zebrafish, to study how organs form and linked it to gene expression www.biorxiv.org/content/10.6... +🧪
Reposted by Physical Biology of Developing Systems
We‘re looking for a motivated Master student to join our team!
Do you want to optogenetically control metabolic activity to see how metabolism affects patterning and morphogenesis? 💡🧫🧬🔬
Then please apply!
#optogenetics #metabolism #devbio #hESCs
Please RT. Thank you!🙏
Do you want to optogenetically control metabolic activity to see how metabolism affects patterning and morphogenesis? 💡🧫🧬🔬
Then please apply!
#optogenetics #metabolism #devbio #hESCs
Please RT. Thank you!🙏
February 17, 2026 at 6:21 PM
We‘re looking for a motivated Master student to join our team!
Do you want to optogenetically control metabolic activity to see how metabolism affects patterning and morphogenesis? 💡🧫🧬🔬
Then please apply!
#optogenetics #metabolism #devbio #hESCs
Please RT. Thank you!🙏
Do you want to optogenetically control metabolic activity to see how metabolism affects patterning and morphogenesis? 💡🧫🧬🔬
Then please apply!
#optogenetics #metabolism #devbio #hESCs
Please RT. Thank you!🙏
Reposted by Physical Biology of Developing Systems
I am thrilled to share our paper introducing RBPscan, a novel approach to profile RNA–protein interactions in living cells. Free access link at the end ⬇️ 🧵 1/
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
RBPscan: A quantitative in vivo tool for profiling RNA-binding protein interactions
Kretov et al. introduce RBPscan, an RNA-editing-based platform that measures how RNA-binding
proteins engage their targets in living cells. This approach quantifies the binding
strength of protein-RNA...
www.cell.com
February 6, 2026 at 9:37 PM
I am thrilled to share our paper introducing RBPscan, a novel approach to profile RNA–protein interactions in living cells. Free access link at the end ⬇️ 🧵 1/
www.cell.com/molecular-ce...
www.cell.com/molecular-ce...
#Canada 🍁 has opened prestigious CIRTA fellowship for internationally based candidates in Ph.D. and postdoctoral levels. We (Physical biology of developing systems lab at McMaster University) are interested in recruiting through that stream. Please apply / spread the word for those interested:
January 18, 2026 at 2:58 AM
#Canada 🍁 has opened prestigious CIRTA fellowship for internationally based candidates in Ph.D. and postdoctoral levels. We (Physical biology of developing systems lab at McMaster University) are interested in recruiting through that stream. Please apply / spread the word for those interested:
Oh my god, @biologyopen.bsky.social put this newbie next to John Gurdon in their @biologists.bsky.social 100-year anniversary cover dedicated to reviewers! What a lovely gift and coincidence for closing the year... 🤩
January 15, 2026 at 6:40 AM
Oh my god, @biologyopen.bsky.social put this newbie next to John Gurdon in their @biologists.bsky.social 100-year anniversary cover dedicated to reviewers! What a lovely gift and coincidence for closing the year... 🤩
Reposted by Physical Biology of Developing Systems
Lovely little pre-Christmas present to see this out @natcellbio.nature.com! Some 🔥 new results in here since the biorvix incl (1) a new RARE-GFP reporter ✳️🙌, (2) additional NMP quantification 🔢, (3) no neural tube patterning on RA inhibition 🙅 etc. Enjoy! 😍 www.nature.com/articles/s41...
Modelling co-development between the somites and neural tube in human trunk-like structures - Nature Cell Biology
Makwana, Tilley et al. generate human stem cell-based trunk-like structures approximating Carnegie stage 13–14 of development. They use them to model and study the development of the thoracic and lumbar trunk.
www.nature.com
December 16, 2025 at 10:04 AM
Lovely little pre-Christmas present to see this out @natcellbio.nature.com! Some 🔥 new results in here since the biorvix incl (1) a new RARE-GFP reporter ✳️🙌, (2) additional NMP quantification 🔢, (3) no neural tube patterning on RA inhibition 🙅 etc. Enjoy! 😍 www.nature.com/articles/s41...
#FluorescenceFriday bleed-through from yesterday #zebrafish 🐟🔬:
November 29, 2025 at 5:00 PM
#FluorescenceFriday bleed-through from yesterday #zebrafish 🐟🔬:
Reposted by Physical Biology of Developing Systems
We are hiring an Imaging Scientis. Apply here: go.mbl.edu/AS1887
October 28, 2025 at 6:43 PM
We are hiring an Imaging Scientis. Apply here: go.mbl.edu/AS1887
Fascinating timelapses of #somite clock with cadherins from Kageyama Lab @dev-journal.bsky.social : journals.biologists.com/dev/article/...! A new player in clock and #fgf gradient cross-talk besides previously discovered Dusps linking both transcriptional and post-translationally. 🧪🔬 #devbio
October 20, 2025 at 5:29 PM
Fascinating timelapses of #somite clock with cadherins from Kageyama Lab @dev-journal.bsky.social : journals.biologists.com/dev/article/...! A new player in clock and #fgf gradient cross-talk besides previously discovered Dusps linking both transcriptional and post-translationally. 🧪🔬 #devbio
Reposted by Physical Biology of Developing Systems
New BBSRC funded PhD opportunity in my group with Inspiralis Ltd and @conradn.bsky.social. If you are interested in RNA - protein interactions and RNA modifications check the details below for how to apply. @nrpdtp.bsky.social @biouea.bsky.social @earlhaminst.bsky.social tinyurl.com/bdzvn4dr
How do RNA molecules shape genome regulation in the nervous system? (AKAY_U26CASE) | Doctoral Training Partnership
This PhD project will investigate how RNA modifications influence the activity of topoisomerase I (TOP1), a crucial enzyme that regulates DNA supercoiling during replication and transcription. Using C...
biodtp.norwichresearchpark.ac.uk
October 12, 2025 at 7:43 PM
New BBSRC funded PhD opportunity in my group with Inspiralis Ltd and @conradn.bsky.social. If you are interested in RNA - protein interactions and RNA modifications check the details below for how to apply. @nrpdtp.bsky.social @biouea.bsky.social @earlhaminst.bsky.social tinyurl.com/bdzvn4dr
It was one-of-a-kind moment to meet Sir John Gurdon at @socdevbio.bsky.social meeting in 2019. Such a humble, down-to-earth personality who was deeply content with life! An exemplary scientist that one could find at the benchside playground regardless of age or career stage! May he rest in peace...
Prof. Sir John Gurdon (1933-2025). It is with great sadness that I share the news of the death of a father of the Xenopus field, Professor Sir John Gurdon. www.xenbase.org/xenbase/doNe... #science #devbio #xenopus #frogs
October 9, 2025 at 12:41 AM
It was one-of-a-kind moment to meet Sir John Gurdon at @socdevbio.bsky.social meeting in 2019. Such a humble, down-to-earth personality who was deeply content with life! An exemplary scientist that one could find at the benchside playground regardless of age or career stage! May he rest in peace...
1/5 Lab's first manuscript 🎉 is out @biorxivpreprint.bsky.social today! Beautifully, it is performed by a senior undergraduate thesis student, Mohammed! We developed a 3-D printed #zebrafish embryo imaging chamber 🔬and connected it to syringe pumps to be able to perfuse drugs in a timely fashion. 🧪
October 2, 2025 at 2:27 AM
1/5 Lab's first manuscript 🎉 is out @biorxivpreprint.bsky.social today! Beautifully, it is performed by a senior undergraduate thesis student, Mohammed! We developed a 3-D printed #zebrafish embryo imaging chamber 🔬and connected it to syringe pumps to be able to perfuse drugs in a timely fashion. 🧪
Reposted by Physical Biology of Developing Systems
🚀 Our new paper is out @natmethods.nature.com!
Kuffer & Marzilli engineered conditionally stable MS2 & PP7 coat proteins (dMCP & dPCP) that degrade unless bound to RNA, enabling ultra–low-background, single-mRNA imaging in live cells.
🔗 www.nature.com/articles/s41...
🧬 www.addgene.org/John_Ngo/
Kuffer & Marzilli engineered conditionally stable MS2 & PP7 coat proteins (dMCP & dPCP) that degrade unless bound to RNA, enabling ultra–low-background, single-mRNA imaging in live cells.
🔗 www.nature.com/articles/s41...
🧬 www.addgene.org/John_Ngo/
September 22, 2025 at 6:27 PM
🚀 Our new paper is out @natmethods.nature.com!
Kuffer & Marzilli engineered conditionally stable MS2 & PP7 coat proteins (dMCP & dPCP) that degrade unless bound to RNA, enabling ultra–low-background, single-mRNA imaging in live cells.
🔗 www.nature.com/articles/s41...
🧬 www.addgene.org/John_Ngo/
Kuffer & Marzilli engineered conditionally stable MS2 & PP7 coat proteins (dMCP & dPCP) that degrade unless bound to RNA, enabling ultra–low-background, single-mRNA imaging in live cells.
🔗 www.nature.com/articles/s41...
🧬 www.addgene.org/John_Ngo/