Rahul K
@theresearch.bsky.social
I run, ski, and engineer cells and materials; asking how nutrient sensing & signaling work: bit.ly/RK-GoogleScholar
🇪🇪: TalTech| Ex: Tartu Ülikool; 🇸🇪: Karolinska Institutet, Chalmers; 🇯🇵: Kyutech; 🇮🇳: IITD
🇪🇪: TalTech| Ex: Tartu Ülikool; 🇸🇪: Karolinska Institutet, Chalmers; 🇯🇵: Kyutech; 🇮🇳: IITD
Pinned
Rahul K
@theresearch.bsky.social
· Nov 11
I’d like to invite everyone working on engineering living materials to share this starter pack. Please drop me a message or leave a comment if you like to join the #ELMs community. go.bsky.app/RinsDZh
Reposted by Rahul K
Chromatin recruitment and cohesion establishment of human Sororin requires not just SMC3 acetylation, but also S-phase PARylation of the Sororin-binding microprotein RSMC
Wenya Hou, Huiqiang Lou and collaborators
www.embopress.org/doi/full/10....
Wenya Hou, Huiqiang Lou and collaborators
www.embopress.org/doi/full/10....
November 20, 2025 at 7:41 AM
Chromatin recruitment and cohesion establishment of human Sororin requires not just SMC3 acetylation, but also S-phase PARylation of the Sororin-binding microprotein RSMC
Wenya Hou, Huiqiang Lou and collaborators
www.embopress.org/doi/full/10....
Wenya Hou, Huiqiang Lou and collaborators
www.embopress.org/doi/full/10....
Reposted by Rahul K
Check out this amazing story from the labs of @stanford-chemh.bsky.social institute scholar Paul Mischel and Howard Chang @stanfordmedicine.bsky.social !
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Genetic elements promote retention of extrachromosomal DNA in cancer cells - Nature
A combination of genome-wide functional screening, imaging and chromatin profiling identifies a new class of highly prevalent genomic elements that help retain extrachromosomal DNA copies in dividing ...
www.nature.com
November 20, 2025 at 5:22 AM
Check out this amazing story from the labs of @stanford-chemh.bsky.social institute scholar Paul Mischel and Howard Chang @stanfordmedicine.bsky.social !
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Rahul K
TCA time!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
November 20, 2025 at 2:09 AM
TCA time!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Bibel, B., & The bumbling biochemist. (2024). Expanded TCA cycle (TriCarboxylic Acid Cycle, aka Citric Acid Cycle, aka Krebs cycle). Zenodo. doi.org/10.5281/zeno...
Feel free to use, but please cite the bumbling biochemist if you do. Thank you and happy learning!
Reposted by Rahul K
Check out our newest work! This is a story on how to get selectivity in binders - both isoform and site selectivity. Read the paper or enjoy this brief Skytorial of what we did!
www.biorxiv.org/content/10.1...
1/n
www.biorxiv.org/content/10.1...
1/n
PANCS-spec-Binders: A system for rapidly discovering isoform- or epitope-specific binders
Proteins that bind to a target protein of interest, termed "binders," are essential components of biological research reagents and therapeutics. Target proteins present multiple binding surfaces with ...
www.biorxiv.org
November 19, 2025 at 6:10 PM
Check out our newest work! This is a story on how to get selectivity in binders - both isoform and site selectivity. Read the paper or enjoy this brief Skytorial of what we did!
www.biorxiv.org/content/10.1...
1/n
www.biorxiv.org/content/10.1...
1/n
Reposted by Rahul K
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs
Low-affinity transcription factor (TF) motifs are an important element of the cis-regulatory code, yet they are notoriously difficult to map and mechanistically incompletely understood, limiting our a...
www.biorxiv.org
November 19, 2025 at 8:57 PM
We are pleased to announce a new preprint by @mlweilert.bsky.social: “Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs” (www.biorxiv.org/content/10.1...). See summary and longer recap below:
(TLDR; low-affinity motifs matter as pioneers!)
(TLDR; low-affinity motifs matter as pioneers!)
Reposted by Rahul K
Homeostatic control of energy metabolism by monocyte-derived macrophages
@elmiguelche.bsky.social and colleagues show that macrophages sense dysregulated iron metabolism in parenchymal cells and respond by sustaining mitochondrial function in affected cells
www.embopress.org/doi/full/10....
@elmiguelche.bsky.social and colleagues show that macrophages sense dysregulated iron metabolism in parenchymal cells and respond by sustaining mitochondrial function in affected cells
www.embopress.org/doi/full/10....
November 19, 2025 at 3:20 PM
Homeostatic control of energy metabolism by monocyte-derived macrophages
@elmiguelche.bsky.social and colleagues show that macrophages sense dysregulated iron metabolism in parenchymal cells and respond by sustaining mitochondrial function in affected cells
www.embopress.org/doi/full/10....
@elmiguelche.bsky.social and colleagues show that macrophages sense dysregulated iron metabolism in parenchymal cells and respond by sustaining mitochondrial function in affected cells
www.embopress.org/doi/full/10....
Reposted by Rahul K
We are looking for a postdoctoral fellow to work on induced proximity 🤜🤛 and functional genomics! Join our team in Toronto 🇨🇦 to tackle major challenges in oncology and neurodegeneration. www.nature.com/naturecareer...
POSTDOCTORAL FELLOW - Toronto (City), Ontario (CA) job with Taipale Lab, Donnelly Centre, University of Toronto | 12849004
The Taipale lab in the Donnelly CCBR and University of Toronto is looking for a highly motivated Postdoctoral Fellow
www.nature.com
November 19, 2025 at 5:51 PM
We are looking for a postdoctoral fellow to work on induced proximity 🤜🤛 and functional genomics! Join our team in Toronto 🇨🇦 to tackle major challenges in oncology and neurodegeneration. www.nature.com/naturecareer...
Reposted by Rahul K
This was all possible because of the support of my incredible PI @brianhie.bsky.social and my amazing labmates @samuelhking.bsky.social and Eric Nguyen. Grateful to be surrounded by people who inspire me to be a better scientist.
To learn more, check out the paper: www.nature.com/articles/s41...
To learn more, check out the paper: www.nature.com/articles/s41...
Semantic design of functional de novo genes from a genomic language model - Nature
By learning a semantics of gene function based on genomic context, the genomic language model Evo autocompletes DNA prompts to generate novel genes encoding protein and RNA molecules with defined acti...
www.nature.com
November 19, 2025 at 4:40 PM
This was all possible because of the support of my incredible PI @brianhie.bsky.social and my amazing labmates @samuelhking.bsky.social and Eric Nguyen. Grateful to be surrounded by people who inspire me to be a better scientist.
To learn more, check out the paper: www.nature.com/articles/s41...
To learn more, check out the paper: www.nature.com/articles/s41...
Reposted by Rahul K
What if we could autocomplete DNA based on function?
Today in @Nature, we share semantic design—a strategy for function-guided design with genomic language models that leverages genomic context to create de novo genes and systems with desired functions. 🧵
www.nature.com/articles/s41...
Today in @Nature, we share semantic design—a strategy for function-guided design with genomic language models that leverages genomic context to create de novo genes and systems with desired functions. 🧵
www.nature.com/articles/s41...
November 19, 2025 at 4:31 PM
What if we could autocomplete DNA based on function?
Today in @Nature, we share semantic design—a strategy for function-guided design with genomic language models that leverages genomic context to create de novo genes and systems with desired functions. 🧵
www.nature.com/articles/s41...
Today in @Nature, we share semantic design—a strategy for function-guided design with genomic language models that leverages genomic context to create de novo genes and systems with desired functions. 🧵
www.nature.com/articles/s41...
Reposted by Rahul K
My lab is recruiting a post-doc ! please share ! emploi.cnrs.fr/Offres/CDD/U...
November 14, 2025 at 2:27 PM
My lab is recruiting a post-doc ! please share ! emploi.cnrs.fr/Offres/CDD/U...
Reposted by Rahul K
New: PNW RECOVER Long COVID Update — @isbscience.org's Jim Heath, @uwmedicine.bsky.social's Helen Chu & Swedish's Jason Goldman shared new insights on #longCOVID symptom trajectories, clinical trial findings, and upcoming treatment studies.
Recap + full video: isbscience.org/news/isb-eve...
Recap + full video: isbscience.org/news/isb-eve...
What We’re Learning About Long COVID: Updates from the PNW RECOVER Town Hall
In a virtual town hall, PNW RECOVER leaders shared data on long COVID trajectories, early clinical trial findings, and upcoming studies.
isbscience.org
November 19, 2025 at 2:51 AM
New: PNW RECOVER Long COVID Update — @isbscience.org's Jim Heath, @uwmedicine.bsky.social's Helen Chu & Swedish's Jason Goldman shared new insights on #longCOVID symptom trajectories, clinical trial findings, and upcoming treatment studies.
Recap + full video: isbscience.org/news/isb-eve...
Recap + full video: isbscience.org/news/isb-eve...
Reposted by Rahul K
Hmmm
This work has so many implications on literature 😳😬
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS www.pnas.org/doi/10.1073/...
This work has so many implications on literature 😳😬
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS www.pnas.org/doi/10.1073/...
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS
Dihydrodichlorofluorescein derivatives have been employed as reporters of intracellular
reactive oxygen species (ROS) in innumerable studies. Their...
www.pnas.org
November 19, 2025 at 5:03 AM
Hmmm
This work has so many implications on literature 😳😬
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS www.pnas.org/doi/10.1073/...
This work has so many implications on literature 😳😬
Fluorescein-based dyes are not valid reporters of oxidative stress in bacteria, and conclusions based on their use must be reconsidered | PNAS www.pnas.org/doi/10.1073/...
Reposted by Rahul K
Chemical proteomics decrypts the kinases that shape the dynamic human phosphoproteome https://www.biorxiv.org/content/10.1101/2025.11.18.689017v1
November 18, 2025 at 11:03 PM
Chemical proteomics decrypts the kinases that shape the dynamic human phosphoproteome https://www.biorxiv.org/content/10.1101/2025.11.18.689017v1
Reposted by Rahul K
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 Rahul K
Out today, our take on 6-methyladenine #6mA evolution in Eukaryotes @natgenet.nature.com. We asked a simple question, is really DNA 6mA common across the eukaryotes? The answer is "yes" if you're a unicellular eukaryote 🦠, not so if you're multicellular 🐝🌱🍄. www.nature.com/articles/s41... 1/9
Adenine DNA methylation associated with transcriptionally permissive chromatin is widespread across eukaryotes - Nature Genetics
Long-read sequencing in 18 unicellular eukaryotes reveals that 6mA is widespread across eukaryotes and is enriched at transcriptionally permissive regions, which are also marked by H3K4me3.
www.nature.com
November 18, 2025 at 12:00 PM
Out today, our take on 6-methyladenine #6mA evolution in Eukaryotes @natgenet.nature.com. We asked a simple question, is really DNA 6mA common across the eukaryotes? The answer is "yes" if you're a unicellular eukaryote 🦠, not so if you're multicellular 🐝🌱🍄. www.nature.com/articles/s41... 1/9
Reposted by Rahul K
Extremely happy to see this out in @embojournal.org! Here we provide a guide on how to accurately determine mitochondrial membrane potential. Thanks to @marcliesa.bsky.social for the opportunity and to everyone involved! We hope you find it useful!
@ibmb-csic.bsky.social
@ibmb-csic.bsky.social
Measuring mitochondrial membrane potential
@marcliesa.bsky.social , Guillermo Martínez-Corrales et al @ibmb-csic.bsky.social comment on common misinterpretation of mitochondrial membrane potential measurements & suggest guidelines for accurate determination in cells
www.embopress.org/doi/full/10....
@marcliesa.bsky.social , Guillermo Martínez-Corrales et al @ibmb-csic.bsky.social comment on common misinterpretation of mitochondrial membrane potential measurements & suggest guidelines for accurate determination in cells
www.embopress.org/doi/full/10....
November 17, 2025 at 4:43 PM
Extremely happy to see this out in @embojournal.org! Here we provide a guide on how to accurately determine mitochondrial membrane potential. Thanks to @marcliesa.bsky.social for the opportunity and to everyone involved! We hope you find it useful!
@ibmb-csic.bsky.social
@ibmb-csic.bsky.social
Reposted by Rahul K
Measuring mitochondrial membrane potential | The EMBO Journal www.embopress.org/doi/full/10....
Measuring mitochondrial membrane potential | The EMBO Journal
EMBO Press is an editorially independent publishing platform for the development of EMBO scientific publications.
www.embopress.org
November 18, 2025 at 7:39 PM
Measuring mitochondrial membrane potential | The EMBO Journal www.embopress.org/doi/full/10....
Reposted by Rahul K
BiosInt: Biosensor-based smart design of pathway dynamic regulation for industrial biomanufacturing https://www.biorxiv.org/content/10.1101/2025.11.17.688676v1
November 18, 2025 at 2:02 AM
BiosInt: Biosensor-based smart design of pathway dynamic regulation for industrial biomanufacturing https://www.biorxiv.org/content/10.1101/2025.11.17.688676v1
Reposted by Rahul K
Excited to share our new study, led by @dellaVolpe_L, now out in @natcellbio.nature.com! Blocking #ferroptosis enhances human 🩸 stem cell expansion, with implications for transplantation and gene therapy. www.nature.com/articles/s41...
November 18, 2025 at 5:49 PM
Excited to share our new study, led by @dellaVolpe_L, now out in @natcellbio.nature.com! Blocking #ferroptosis enhances human 🩸 stem cell expansion, with implications for transplantation and gene therapy. www.nature.com/articles/s41...
Reposted by Rahul K
New blog post - AI "peer" review - the impact on scientific publishing. Some thoughts on AI manuscript assessments and potential impacts on scientific publishing www.evocellnet.com/2025/11/ai-p...
AI "peer" review - the impact on scientific publishing
It is the first time, in the second half of this year, that I am not trying to urgently deal with something. So, instead of working on some ...
www.evocellnet.com
November 18, 2025 at 4:02 PM
New blog post - AI "peer" review - the impact on scientific publishing. Some thoughts on AI manuscript assessments and potential impacts on scientific publishing www.evocellnet.com/2025/11/ai-p...
Reposted by Rahul K
Major new direction in the lab: hacking human cell biology with pathogen effectors (eORFs) - amazing collaboration with @miketilapia.bsky.social lab. Huge congrats to first authors Tomas & He & all co-authors! Check out the pre-print on @biorxivpreprint.bsky.social www.biorxiv.org/content/10.1...
www.biorxiv.org
November 18, 2025 at 2:51 PM
Major new direction in the lab: hacking human cell biology with pathogen effectors (eORFs) - amazing collaboration with @miketilapia.bsky.social lab. Huge congrats to first authors Tomas & He & all co-authors! Check out the pre-print on @biorxivpreprint.bsky.social www.biorxiv.org/content/10.1...
Reposted by Rahul K
In scientific writing, it's the "why" before the "what":
"To achieve X, we did Y"
"To explore whether A repressed B, we performed C"
"To test D, we did E"
Starting with the rationale pulls the reader into your logical framework and makes the purpose of every test immediately obvious.
"To achieve X, we did Y"
"To explore whether A repressed B, we performed C"
"To test D, we did E"
Starting with the rationale pulls the reader into your logical framework and makes the purpose of every test immediately obvious.
November 18, 2025 at 2:05 PM
In scientific writing, it's the "why" before the "what":
"To achieve X, we did Y"
"To explore whether A repressed B, we performed C"
"To test D, we did E"
Starting with the rationale pulls the reader into your logical framework and makes the purpose of every test immediately obvious.
"To achieve X, we did Y"
"To explore whether A repressed B, we performed C"
"To test D, we did E"
Starting with the rationale pulls the reader into your logical framework and makes the purpose of every test immediately obvious.
Reposted by Rahul K
Now online:
News & Views on the Article by Jing Lyu, Qiuning Lin & co-workers
www.nature.com/articles/s44... ($)
In situ nanoscale reinforcement strengthens polymer gels by Derek J. Kiebala & Andreas Walther
www.nature.com/articles/s44... ($)
#Chemsky
News & Views on the Article by Jing Lyu, Qiuning Lin & co-workers
www.nature.com/articles/s44... ($)
In situ nanoscale reinforcement strengthens polymer gels by Derek J. Kiebala & Andreas Walther
www.nature.com/articles/s44... ($)
#Chemsky
In situ nanoscale reinforcement strengthens polymer gels - Nature Synthesis
Tuning the kinetics of photo-induced crosslinking between mechanically distinct polymer phases produces strong and tough hydrogels.
www.nature.com
November 18, 2025 at 10:16 AM
Now online:
News & Views on the Article by Jing Lyu, Qiuning Lin & co-workers
www.nature.com/articles/s44... ($)
In situ nanoscale reinforcement strengthens polymer gels by Derek J. Kiebala & Andreas Walther
www.nature.com/articles/s44... ($)
#Chemsky
News & Views on the Article by Jing Lyu, Qiuning Lin & co-workers
www.nature.com/articles/s44... ($)
In situ nanoscale reinforcement strengthens polymer gels by Derek J. Kiebala & Andreas Walther
www.nature.com/articles/s44... ($)
#Chemsky
Reposted by Rahul K
🚨I am looking for a POSTDOC, LAB MANAGER/TECH and GRAD STUDENTS to join my new lab in beautiful Madison, WI.
We study how our brains perceive and represent the physical world around us using behavioral, computational, and neuroimaging methods.
paulunlab.psych.wisc.edu
#VisionScience #NeuroSkyence
We study how our brains perceive and represent the physical world around us using behavioral, computational, and neuroimaging methods.
paulunlab.psych.wisc.edu
#VisionScience #NeuroSkyence
November 17, 2025 at 9:43 PM
🚨I am looking for a POSTDOC, LAB MANAGER/TECH and GRAD STUDENTS to join my new lab in beautiful Madison, WI.
We study how our brains perceive and represent the physical world around us using behavioral, computational, and neuroimaging methods.
paulunlab.psych.wisc.edu
#VisionScience #NeuroSkyence
We study how our brains perceive and represent the physical world around us using behavioral, computational, and neuroimaging methods.
paulunlab.psych.wisc.edu
#VisionScience #NeuroSkyence
Reposted by Rahul K
Looking forward to sharing @pathoplexus.org next week at the @evbc.bsky.social Viruses in Silico lecture! Tune in if you'd like to hear about open but protected data sharing, simple uploads, & transparent governance - all to help with easier, faster viral genome sharing!
#opendata #openscience
#opendata #openscience
📢 Next Viruses in silico lecture:
🎙️ Pathoplexus: A Community-Driven Solution for Transparent and Equitable Viral Genomic Data Sharing
👩🔬 Emma Hodcroft @firefoxx66.bsky.social (@swisstph.ch @sib.swiss)
🗓️ 27 Nov 2025 🕑 4 PM CET
📍 Zoom - Register to receive login details
👉 tinyurl.com/VirInSilico
🎙️ Pathoplexus: A Community-Driven Solution for Transparent and Equitable Viral Genomic Data Sharing
👩🔬 Emma Hodcroft @firefoxx66.bsky.social (@swisstph.ch @sib.swiss)
🗓️ 27 Nov 2025 🕑 4 PM CET
📍 Zoom - Register to receive login details
👉 tinyurl.com/VirInSilico
November 18, 2025 at 7:53 AM
Looking forward to sharing @pathoplexus.org next week at the @evbc.bsky.social Viruses in Silico lecture! Tune in if you'd like to hear about open but protected data sharing, simple uploads, & transparent governance - all to help with easier, faster viral genome sharing!
#opendata #openscience
#opendata #openscience