Ci Ji (CJ) Lim
@cijilim.bsky.social
Associate Professor @ UW-Madison Biochemistry. www.limlab.org
Telomeres, Cryo-EM, Single-molecule Biophysics. Opinions are my own. 🇸🇬
Telomeres, Cryo-EM, Single-molecule Biophysics. Opinions are my own. 🇸🇬
Pinned
Human RPA is an essential telomerase processivity factor for maintaining telomeres
Telomerase counteracts telomere shortening by repeatedly adding DNA repeats to chromosome ends. We identified the replication protein A (RPA) heterotrimer as a telomerase processivity factor critical ...
www.science.org
Our paper in Science is out! @souravagrawal.bsky.social, @rlynn.bsky.social, @susvirkar.bsky.social, and the rest of the team show human RPA is a telomerase processivity factor essential for telomere maintenance. This reshapes our thinking about telomerase regulation. www.science.org/doi/10.1126/...
Reposted by Ci Ji (CJ) Lim
We are recruiting a postdoctoral fellow to study mechanisms of DNA replication stress using single-molecule imaging tools. If you are excited about microscopy, replisome dynamics, and genome stability, we’d love to hear from you.
Application deadline: 24 December
www.crick.ac.uk/careers-stud...
Application deadline: 24 December
www.crick.ac.uk/careers-stud...
Postdoctoral Fellow - H Yardimci Lab
www.crick.ac.uk
November 25, 2025 at 11:55 AM
We are recruiting a postdoctoral fellow to study mechanisms of DNA replication stress using single-molecule imaging tools. If you are excited about microscopy, replisome dynamics, and genome stability, we’d love to hear from you.
Application deadline: 24 December
www.crick.ac.uk/careers-stud...
Application deadline: 24 December
www.crick.ac.uk/careers-stud...
Reposted by Ci Ji (CJ) Lim
Registration for #APSPM2026 closes soon.
Everyone’s welcome! whether you study evolution, structure, or computational methods, join us in Brisbane (and online) Feb 16–18, 2026 to learn how protein structure meets phylogenetics.
biosig.lab.uq.edu.au/strphy26
@official-smbe.bsky.social
Everyone’s welcome! whether you study evolution, structure, or computational methods, join us in Brisbane (and online) Feb 16–18, 2026 to learn how protein structure meets phylogenetics.
biosig.lab.uq.edu.au/strphy26
@official-smbe.bsky.social
November 23, 2025 at 10:03 PM
Registration for #APSPM2026 closes soon.
Everyone’s welcome! whether you study evolution, structure, or computational methods, join us in Brisbane (and online) Feb 16–18, 2026 to learn how protein structure meets phylogenetics.
biosig.lab.uq.edu.au/strphy26
@official-smbe.bsky.social
Everyone’s welcome! whether you study evolution, structure, or computational methods, join us in Brisbane (and online) Feb 16–18, 2026 to learn how protein structure meets phylogenetics.
biosig.lab.uq.edu.au/strphy26
@official-smbe.bsky.social
Reposted by Ci Ji (CJ) Lim
I am pleased to announce the release of ProteinDJ v2! This is a major update that integrates BindCraft into the pipeline as an alternative to RFdiffusion for binder generation. You can try it out here: github.com/PapenfussLab/proteindj
#ProteinDJ #BindCraft #ProteinDesign @wehi-research.bsky.social
#ProteinDJ #BindCraft #ProteinDesign @wehi-research.bsky.social
November 25, 2025 at 3:01 AM
I am pleased to announce the release of ProteinDJ v2! This is a major update that integrates BindCraft into the pipeline as an alternative to RFdiffusion for binder generation. You can try it out here: github.com/PapenfussLab/proteindj
#ProteinDJ #BindCraft #ProteinDesign @wehi-research.bsky.social
#ProteinDJ #BindCraft #ProteinDesign @wehi-research.bsky.social
Reposted by Ci Ji (CJ) Lim
Proteins are dynamic structures, but structural biology often shows them as static snapshots. Inspired by long-exposure photography and generative art, I built ProteinCHAOS, an artistic tool inspired by molecular dynamics to capture protein flexibility over time, much like long-exposure images.
November 23, 2025 at 11:18 PM
Proteins are dynamic structures, but structural biology often shows them as static snapshots. Inspired by long-exposure photography and generative art, I built ProteinCHAOS, an artistic tool inspired by molecular dynamics to capture protein flexibility over time, much like long-exposure images.
Reposted by Ci Ji (CJ) Lim
Genome sequencing technology is introducing biologists to a world of quasi-life forms that they’ve never met before. @jakebuehler.bsky.social reports: www.quantamagazine.org/a-cell-so-mi...
A Cell So Minimal That It Challenges Definitions of Life | Quanta Magazine
The newly described microbe represents a world of parasitic, intercellular biodiversity only beginning to be revealed by genome sequencing.
www.quantamagazine.org
November 24, 2025 at 2:56 PM
Genome sequencing technology is introducing biologists to a world of quasi-life forms that they’ve never met before. @jakebuehler.bsky.social reports: www.quantamagazine.org/a-cell-so-mi...
Reposted by Ci Ji (CJ) Lim
Delighted to report that our group's passion project over the last 6+ years to make DNA cloning more accessible, efficient, and scalable using a software-assisted workflow called CloneCoordinate is now out in ACS Synbio!
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
CloneCoordinate: Open-Source Software for Collaborative DNA Construction
Custom DNA constructs have never been more common or important in the life sciences. Many researchers therefore devote substantial time and effort to molecular cloning, aided by abundant computer-aide...
pubs.acs.org
November 21, 2025 at 7:40 PM
Delighted to report that our group's passion project over the last 6+ years to make DNA cloning more accessible, efficient, and scalable using a software-assisted workflow called CloneCoordinate is now out in ACS Synbio!
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
Reposted by Ci Ji (CJ) Lim
New Online! The dynamic and heterogeneous composition of biomolecular condensates and its functional relevance
The dynamic and heterogeneous composition of biomolecular condensates and its functional relevance
Nature Reviews Molecular Cell Biology, Published online: 20 November 2025; doi:10.1038/s41580-025-00897-2Biomolecular condensates are non-membrane-encapsulated compartments that control various biological processes. Recent studies have revealed that condensates change in response to stimuli and over time. This Review discusses the heterogeneity and composition changes of nuclear and cytoplasmic condensates, their regulation and how the changes affect cellular biochemical reactions.
bit.ly
November 20, 2025 at 7:44 PM
New Online! The dynamic and heterogeneous composition of biomolecular condensates and its functional relevance
Reposted by Ci Ji (CJ) Lim
Job vacancy: Nature Chemical Biology is hiring
Nature Chemical Biology is seeking an Associate or Senior Editor. This is a permanent full-time position within the editorial team. The vacancy is for one of the offices based in USA or China.
springernature.wd3.myworkdayjobs.com/en-US/Spring...
Nature Chemical Biology is seeking an Associate or Senior Editor. This is a permanent full-time position within the editorial team. The vacancy is for one of the offices based in USA or China.
springernature.wd3.myworkdayjobs.com/en-US/Spring...
Associate or Senior Editor, Nature Chemical Biology
Job Title: Associate or Senior Editor, Nature Chemical Biology Organization: Nature Portfolio Location: New York, Washington DC, Jersey City, Beijing or Shanghai – Hybrid working Model Closing date: D...
springernature.wd3.myworkdayjobs.com
November 20, 2025 at 5:41 PM
Job vacancy: Nature Chemical Biology is hiring
Nature Chemical Biology is seeking an Associate or Senior Editor. This is a permanent full-time position within the editorial team. The vacancy is for one of the offices based in USA or China.
springernature.wd3.myworkdayjobs.com/en-US/Spring...
Nature Chemical Biology is seeking an Associate or Senior Editor. This is a permanent full-time position within the editorial team. The vacancy is for one of the offices based in USA or China.
springernature.wd3.myworkdayjobs.com/en-US/Spring...
Reposted by Ci Ji (CJ) Lim
🚀 Hiring: Cryo-EM Application Scientist, Marketing!
Develop and deliver high-impact scientific marketing content, illustrate the value of new #CryoSPARC features and #cryoEM advances, and help scientists understand how our tools can help solve their problems.
structura.bio/careers/appl...
Develop and deliver high-impact scientific marketing content, illustrate the value of new #CryoSPARC features and #cryoEM advances, and help scientists understand how our tools can help solve their problems.
structura.bio/careers/appl...
Structura Bio | Structura Bio
structura.bio
November 20, 2025 at 9:00 PM
🚀 Hiring: Cryo-EM Application Scientist, Marketing!
Develop and deliver high-impact scientific marketing content, illustrate the value of new #CryoSPARC features and #cryoEM advances, and help scientists understand how our tools can help solve their problems.
structura.bio/careers/appl...
Develop and deliver high-impact scientific marketing content, illustrate the value of new #CryoSPARC features and #cryoEM advances, and help scientists understand how our tools can help solve their problems.
structura.bio/careers/appl...
Reposted by Ci Ji (CJ) Lim
Are you a postdoc or assistant professor on the job market? Reminder that our department is hiring! We are a scientifically diverse department looking for a colleague that is excited about science, teaching, and potential collaborations! Please apply by 12/5/25!
November 20, 2025 at 6:52 PM
Are you a postdoc or assistant professor on the job market? Reminder that our department is hiring! We are a scientifically diverse department looking for a colleague that is excited about science, teaching, and potential collaborations! Please apply by 12/5/25!
Reposted by Ci Ji (CJ) Lim
Re-upping this - Neuropeeps! We have a TT Job in my wonderful department at Brandeis! First consideration to applications received by Dec 15 (but why wait?)
www.nature.com/naturecareer...
www.nature.com/naturecareer...
Assistant Professor in Biology and Neuroscience Program - Waltham, Massachusetts (US) job with Brandeis University | 12848464
The Department of Biology and the Program in Neuroscience at Brandeis University invite applications for a tenure-track Assistant Professor positio...
www.nature.com
November 20, 2025 at 3:03 PM
Re-upping this - Neuropeeps! We have a TT Job in my wonderful department at Brandeis! First consideration to applications received by Dec 15 (but why wait?)
www.nature.com/naturecareer...
www.nature.com/naturecareer...
Reposted by Ci Ji (CJ) Lim
Combine multimer structure prediction and an antibody language model to design de novo antibodies with nanomolar binding affinity.
@synbiogaolab.bsky.social @brianhie.bsky.social
www.biorxiv.org/content/10.1...
@synbiogaolab.bsky.social @brianhie.bsky.social
www.biorxiv.org/content/10.1...
September 25, 2025 at 8:02 PM
Combine multimer structure prediction and an antibody language model to design de novo antibodies with nanomolar binding affinity.
@synbiogaolab.bsky.social @brianhie.bsky.social
www.biorxiv.org/content/10.1...
@synbiogaolab.bsky.social @brianhie.bsky.social
www.biorxiv.org/content/10.1...
Reposted by Ci Ji (CJ) Lim
Today in @nature.com, in work led by @adititm.bsky.social, we report the ability to prompt Evo to generate functional de novo genes.
You shall know a gene by the company it keeps!
You shall know a gene by the company it keeps!
November 19, 2025 at 4:24 PM
Today in @nature.com, in work led by @adititm.bsky.social, we report the ability to prompt Evo to generate functional de novo genes.
You shall know a gene by the company it keeps!
You shall know a gene by the company it keeps!
Reposted by Ci Ji (CJ) Lim
Quite a busy day on #Bluesky !
Been a while since we have been #preLight -ed !
Discover HAK-Actin if you haven't already ;)
Been a while since we have been #preLight -ed !
Discover HAK-Actin if you haven't already ;)
Reliable actin labelling in expansion #microscopy 🔬
Beautiful #preprint from Olivier Mercey, @lreymond.bsky.social & team @dudinlab.bsky.social @centriolelab.bsky.social
Read the latest #preLight from @kanishka03.bsky.social ⬇️👀
prelights.biologists.com/highlights/h...
Beautiful #preprint from Olivier Mercey, @lreymond.bsky.social & team @dudinlab.bsky.social @centriolelab.bsky.social
Read the latest #preLight from @kanishka03.bsky.social ⬇️👀
prelights.biologists.com/highlights/h...
HAK-actin, U-ExM-compatible probe to image the actin cytoskeleton - preLights
HAK-actin is a new probe that may help researchers see the actin cytoskeleton in sharper detail using expansion microscopy.
prelights.biologists.com
November 19, 2025 at 12:36 PM
Reposted by Ci Ji (CJ) Lim
Our new preprint is online! Viruses, bacteria and parasites use effector proteins to evade immunity and rewire host cell pathways. Together with @AlexanderStark8, we wondered if we could systematically map what these effectors, regardless of their origin, do in human cells. 1/8
www.biorxiv.org
November 18, 2025 at 3:57 PM
Our new preprint is online! Viruses, bacteria and parasites use effector proteins to evade immunity and rewire host cell pathways. Together with @AlexanderStark8, we wondered if we could systematically map what these effectors, regardless of their origin, do in human cells. 1/8
Reposted by Ci Ji (CJ) Lim
Thrilled to share our work on the 🔥 single-celled predator Podophrya collini, which rewires its cell morphology to hunt more efficiently. Huge thanks to our amazing team—Amy, Lauren, Omaya, Marine, Mari, and especially Scott—for making this shine! ✨
How do cells adapt morphology to function? In a 🔥 preprint by @zjmaggiexu.bsky.social , with @dudinlab.bsky.social and @amyweeks.bsky.social , we identify a self-organizing single-cell morphology circuit that optimizes the feeding trap structure of the suctorian P. collini. 🧵 tinyurl.com/4k8nv926
November 18, 2025 at 5:12 PM
Thrilled to share our work on the 🔥 single-celled predator Podophrya collini, which rewires its cell morphology to hunt more efficiently. Huge thanks to our amazing team—Amy, Lauren, Omaya, Marine, Mari, and especially Scott—for making this shine! ✨
Reposted by Ci Ji (CJ) Lim
What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties?
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
January 23, 2025 at 9:32 AM
What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties?
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
Reposted by Ci Ji (CJ) Lim
Very excited to present OpenCGChromatin🔥🔥🔥
A new coarse-grained model that probes full chromatin condensates at near-atomistic resolution to reveal the molecular regulation of chromatin structure and phase separation
Brilliantly led by @kieran-russell.bsky.social, with the Rosen and Orozco groups
A new coarse-grained model that probes full chromatin condensates at near-atomistic resolution to reveal the molecular regulation of chromatin structure and phase separation
Brilliantly led by @kieran-russell.bsky.social, with the Rosen and Orozco groups
November 18, 2025 at 3:07 PM
Very excited to present OpenCGChromatin🔥🔥🔥
A new coarse-grained model that probes full chromatin condensates at near-atomistic resolution to reveal the molecular regulation of chromatin structure and phase separation
Brilliantly led by @kieran-russell.bsky.social, with the Rosen and Orozco groups
A new coarse-grained model that probes full chromatin condensates at near-atomistic resolution to reveal the molecular regulation of chromatin structure and phase separation
Brilliantly led by @kieran-russell.bsky.social, with the Rosen and Orozco groups
Reposted by Ci Ji (CJ) Lim
Our lab is seeking a Postdoctoral Fellow. The position is intentionally broad, as we are looking for outstanding researchers from diverse scientific backgrounds to advance our understanding of cilia and ciliopathies: academicpositions.harvard.edu/postings/15526
HMS - Postdoctoral Fellow in BCMP, Brown Lab
We invite applicants for a postdoctoral fellow position in the Brown lab at Harvard Medical School in Boston, Massachusetts. The Brown lab uses structural, biophysical, and biochemical approaches to d...
academicpositions.harvard.edu
November 18, 2025 at 8:05 PM
Our lab is seeking a Postdoctoral Fellow. The position is intentionally broad, as we are looking for outstanding researchers from diverse scientific backgrounds to advance our understanding of cilia and ciliopathies: academicpositions.harvard.edu/postings/15526
Reposted by Ci Ji (CJ) Lim
Structural insights into the chaperone role of uncharged tRNA(Arg/Gln) in viral RNAP assembly #RNASky 🧪 www.nature.com/articles/s41...
tRNA as an assembly chaperone for a macromolecular transcription-processing complex - Nature Structural & Molecular Biology
Here, the authors solve a series of cryo-electron microscopy structures that show how transfer RNAs (tRNAs) can guide the assembly of the multisubunit poxvirus RNA polymerase, uncovering a role of tRN...
www.nature.com
November 15, 2025 at 9:44 PM
Structural insights into the chaperone role of uncharged tRNA(Arg/Gln) in viral RNAP assembly #RNASky 🧪 www.nature.com/articles/s41...
Huge congratulations to Maggie, Scott, Amy and the rest of the team for this spectacular story told using an amazing array of tools and technology!!! 🔥🤩
November 18, 2025 at 10:36 PM
Huge congratulations to Maggie, Scott, Amy and the rest of the team for this spectacular story told using an amazing array of tools and technology!!! 🔥🤩
Reposted by Ci Ji (CJ) Lim
This work shines because of @zjmaggiexu.bsky.social passion for these cells. She built it all—the cultures, transcriptomes, analyses, modeling and collaborations—from scratch. I can’t begin to express how brilliant and hard-working a scientist she is (and she's 👀 for postdocs!). So proud of her 🥲
November 18, 2025 at 4:15 PM
This work shines because of @zjmaggiexu.bsky.social passion for these cells. She built it all—the cultures, transcriptomes, analyses, modeling and collaborations—from scratch. I can’t begin to express how brilliant and hard-working a scientist she is (and she's 👀 for postdocs!). So proud of her 🥲
Reposted by Ci Ji (CJ) Lim
How do cells adapt morphology to function? In a 🔥 preprint by @zjmaggiexu.bsky.social , with @dudinlab.bsky.social and @amyweeks.bsky.social , we identify a self-organizing single-cell morphology circuit that optimizes the feeding trap structure of the suctorian P. collini. 🧵 tinyurl.com/4k8nv926
November 18, 2025 at 4:15 PM
How do cells adapt morphology to function? In a 🔥 preprint by @zjmaggiexu.bsky.social , with @dudinlab.bsky.social and @amyweeks.bsky.social , we identify a self-organizing single-cell morphology circuit that optimizes the feeding trap structure of the suctorian P. collini. 🧵 tinyurl.com/4k8nv926
Reposted by Ci Ji (CJ) Lim
Calling all rising juniors & seniors: Interested in biological or biomedical research? Applications for our ’26 Summer Undergraduate Research Experience Program are now open! Nine weeks, hands-on research, & mentorship from some of the nation’s top scientists — learn more: bit.ly/CechFellows
Summer Undergraduate Research Experience | HHMI
The Cech Fellows Program is a paid, nine-week summer research experience empowering the next generation of scientific leaders.
bit.ly
November 18, 2025 at 2:44 PM
Calling all rising juniors & seniors: Interested in biological or biomedical research? Applications for our ’26 Summer Undergraduate Research Experience Program are now open! Nine weeks, hands-on research, & mentorship from some of the nation’s top scientists — learn more: bit.ly/CechFellows