Kasturika Shankar
@kasshankar.bsky.social
Postdoc at the University at Buffalo.
Reposted by Kasturika Shankar
Biologists have built one of the most detailed pictures ever of the changes that occur in women’s bodies before and after pregnancy, by pooling and studying around 44 million physiological measurements from more than 300,000 births
https://go.nature.com/4236GSV
https://go.nature.com/4236GSV
Gigantic birth study paints most detailed picture of pregnancy’s toll on body
Data from 300,000 births reveal how essential biological measurements are altered by carrying and delivering a baby.
go.nature.com
March 26, 2025 at 6:14 PM
Biologists have built one of the most detailed pictures ever of the changes that occur in women’s bodies before and after pregnancy, by pooling and studying around 44 million physiological measurements from more than 300,000 births
https://go.nature.com/4236GSV
https://go.nature.com/4236GSV
🎈 The final_final_paper of my PhD is now online.
This protocol can also be used to study other full-length peripheral membrane proteins with limited solubility. I hope this paper will be useful to other biochemists.
Cheers!
bio-protocol.org/en/bpdetail?...
This protocol can also be used to study other full-length peripheral membrane proteins with limited solubility. I hope this paper will be useful to other biochemists.
Cheers!
bio-protocol.org/en/bpdetail?...
bio-protocol.org
March 21, 2025 at 6:33 PM
🎈 The final_final_paper of my PhD is now online.
This protocol can also be used to study other full-length peripheral membrane proteins with limited solubility. I hope this paper will be useful to other biochemists.
Cheers!
bio-protocol.org/en/bpdetail?...
This protocol can also be used to study other full-length peripheral membrane proteins with limited solubility. I hope this paper will be useful to other biochemists.
Cheers!
bio-protocol.org/en/bpdetail?...
Reposted by Kasturika Shankar
Reposted by Kasturika Shankar
Structural basis for Ebola virus nucleocapsid assembly and function regulated by VP24 pubmed.ncbi.nlm.nih.gov/40064872/ #cryoem
March 13, 2025 at 1:34 AM
Structural basis for Ebola virus nucleocapsid assembly and function regulated by VP24 pubmed.ncbi.nlm.nih.gov/40064872/ #cryoem
Reposted by Kasturika Shankar
A special issue on #WomensHealth in #ScienceAdvances highlights a growing wave of research focusing on women’s unique biological and psychological experiences.
Learn more: scim.ag/3R59fPe (THREAD 🧵)
Learn more: scim.ag/3R59fPe (THREAD 🧵)
March 11, 2025 at 7:46 PM
A special issue on #WomensHealth in #ScienceAdvances highlights a growing wave of research focusing on women’s unique biological and psychological experiences.
Learn more: scim.ag/3R59fPe (THREAD 🧵)
Learn more: scim.ag/3R59fPe (THREAD 🧵)
Reposted by Kasturika Shankar
The graphene-based affinity cryo-EM grid for the endogenous protein structure determination pubmed.ncbi.nlm.nih.gov/40060550/ #cryoem
March 11, 2025 at 7:21 PM
The graphene-based affinity cryo-EM grid for the endogenous protein structure determination pubmed.ncbi.nlm.nih.gov/40060550/ #cryoem
Reposted by Kasturika Shankar
A new combination of microscopy methods has revealed exquisite detail of the virus assembly process used by herpes simplex virus during replication.
buff.ly/43aqR3G
buff.ly/43aqR3G
February 28, 2025 at 9:21 AM
A new combination of microscopy methods has revealed exquisite detail of the virus assembly process used by herpes simplex virus during replication.
buff.ly/43aqR3G
buff.ly/43aqR3G
Reposted by Kasturika Shankar
Do you LOVE organelles??
Well I am THRILLED to announce that Nellie has been published in @naturemethods.bsky.social!
Nellie a fully automated pipeline for organelle segmentation, tracking, and hierarchical feature extraction in 2D, 3D, timelapse, multichannel live-cell microscopy
🧵1/N
Well I am THRILLED to announce that Nellie has been published in @naturemethods.bsky.social!
Nellie a fully automated pipeline for organelle segmentation, tracking, and hierarchical feature extraction in 2D, 3D, timelapse, multichannel live-cell microscopy
🧵1/N
February 27, 2025 at 8:13 PM
Do you LOVE organelles??
Well I am THRILLED to announce that Nellie has been published in @naturemethods.bsky.social!
Nellie a fully automated pipeline for organelle segmentation, tracking, and hierarchical feature extraction in 2D, 3D, timelapse, multichannel live-cell microscopy
🧵1/N
Well I am THRILLED to announce that Nellie has been published in @naturemethods.bsky.social!
Nellie a fully automated pipeline for organelle segmentation, tracking, and hierarchical feature extraction in 2D, 3D, timelapse, multichannel live-cell microscopy
🧵1/N
Reposted by Kasturika Shankar
Reposted by Kasturika Shankar
Tumor extracellular vesicle–derived PD-L1 promotes T cell senescence through lipid metabolism reprogramming
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Tumor extracellular vesicle–derived PD-L1 promotes T cell senescence through lipid metabolism reprogramming
PD-L1 from tumor extracellular vesicles induces T cell senescence through lipid metabolism.
www.science.org
February 26, 2025 at 3:35 AM
Tumor extracellular vesicle–derived PD-L1 promotes T cell senescence through lipid metabolism reprogramming
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Wow! It's an amazing finding!!
Caloric restriction prevents inheritance of polycystic ovary syndrome through oocyte-mediated DNA methylation reprogramming
www.cell.com/cell-metabol...
www.cell.com/cell-metabol...
Caloric restriction prevents inheritance of polycystic ovary syndrome through oocyte-mediated DNA methylation reprogramming
Liu et al. reveal that oocytes independently mediate the transgenerational inheritance
of PCOS. Caloric restriction effectively hinders this transmission by restoring disrupted
DNA methylation in insu...
www.cell.com
February 24, 2025 at 4:08 AM
Wow! It's an amazing finding!!
Enteroviruses and their "hyper-functional" proteins!⭐️
Latest #virology research from the lab! 👇
Using genetic approaches and live-cell imaging, we show that the viral 2A protease plays a critical role in subverting antiviral responses and establishing a favorable host environment to expedite enterovirus replication.
www.biorxiv.org/content/10.1...
Using genetic approaches and live-cell imaging, we show that the viral 2A protease plays a critical role in subverting antiviral responses and establishing a favorable host environment to expedite enterovirus replication.
www.biorxiv.org/content/10.1...
The critical role of enterovirus 2A protease in viral translation, replication, and antagonism of host antiviral responses
Enteroviruses dramatically remodel the cellular infrastructure for efficient replication and curtailing host antiviral responses. Proteases 2Apro and 3Cpro have been implicated in these processes base...
www.biorxiv.org
February 24, 2025 at 2:30 AM
Enteroviruses and their "hyper-functional" proteins!⭐️
Reposted by Kasturika Shankar
Reposted by Kasturika Shankar
Guess aspartic acid (D), glutamic acid (E), and isoleucine (I) are too woke to be part of a protein.
Heterologous protein over-expression in E. coli is now woke because of 'inclusion bodies'
February 12, 2025 at 1:18 AM
Guess aspartic acid (D), glutamic acid (E), and isoleucine (I) are too woke to be part of a protein.
Reposted by Kasturika Shankar
A protein language model trained to predict subcellular localization for human proteins can generate de novo sequences with the desired localization and identify pathological mutations.
@itamarchinn.bsky.social @pgmikhael.bsky.social
www.science.org/doi/10.1126/...
@itamarchinn.bsky.social @pgmikhael.bsky.social
www.science.org/doi/10.1126/...
February 10, 2025 at 10:28 PM
A protein language model trained to predict subcellular localization for human proteins can generate de novo sequences with the desired localization and identify pathological mutations.
@itamarchinn.bsky.social @pgmikhael.bsky.social
www.science.org/doi/10.1126/...
@itamarchinn.bsky.social @pgmikhael.bsky.social
www.science.org/doi/10.1126/...
Reposted by Kasturika Shankar
First ribosome purification using poly-lysine beads (RAPPL, developed by @djuranoviclab.bsky.social & collaborators: www.biorxiv.org/content/10.1...). Full process—from lysis to grid prep—in just 3 hours. Look how pretty it is (even if a bit too diluted)! This is a game-changer🚀.
January 30, 2025 at 10:54 AM
First ribosome purification using poly-lysine beads (RAPPL, developed by @djuranoviclab.bsky.social & collaborators: www.biorxiv.org/content/10.1...). Full process—from lysis to grid prep—in just 3 hours. Look how pretty it is (even if a bit too diluted)! This is a game-changer🚀.
Reposted by Kasturika Shankar
Ooh nice preprint! Studying membrane nanodomains needs nanoscale lipid localization - current methods fall short. 'Lipid-CLEM', correlative light & EM with click chemistry to map lipids. In endosomes, it shows sphingomyelin’s differential partitioning beautifully.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Visualizing sub-organellar lipid distribution using correlative light and electron microscopy
Lipids and proteins compartmentalize biological membranes into nanoscale domains which are crucial for signaling, intracellular trafficking and many other cellular processes. Studying nanodomain funct...
www.biorxiv.org
January 29, 2025 at 10:52 PM
Ooh nice preprint! Studying membrane nanodomains needs nanoscale lipid localization - current methods fall short. 'Lipid-CLEM', correlative light & EM with click chemistry to map lipids. In endosomes, it shows sphingomyelin’s differential partitioning beautifully.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Western blot is bloting ;))
January 30, 2025 at 12:11 AM
Western blot is bloting ;))
January 26, 2025 at 11:49 PM
Reposted by Kasturika Shankar
A rapid and efficient method developed to create stem-cell-based 3D mini-organs derived from the cells of patients offers a way to evaluate personalized treatments using RNA therapies for rare genetic diseases
https://go.nature.com/3POiHpJ
https://go.nature.com/3POiHpJ
A scalable system using mini-organs to test personalized RNA therapy
Platform to accelerate the testing of antisense oligonucleotides.
go.nature.com
January 25, 2025 at 12:06 PM
A rapid and efficient method developed to create stem-cell-based 3D mini-organs derived from the cells of patients offers a way to evaluate personalized treatments using RNA therapies for rare genetic diseases
https://go.nature.com/3POiHpJ
https://go.nature.com/3POiHpJ
Reposted by Kasturika Shankar
Several new technologies have enabled translation profiling in single cells. In our article in @natrevmcb.bsky.social, Alexander and I discuss these single-cell methods for measuring ribosome profiles, ribosome-associated transcripts, and spatial translation 🧵 www.nature.com/articles/s41...
Sequencing technologies to measure translation in single cells - Nature Reviews Molecular Cell Biology
Recent sequencing-based methods, including novel ribosome profiling, ribosome affinity purification and spatial translation methods, have enabled the measurement of translation at single-cell resoluti...
www.nature.com
January 23, 2025 at 8:16 PM
Several new technologies have enabled translation profiling in single cells. In our article in @natrevmcb.bsky.social, Alexander and I discuss these single-cell methods for measuring ribosome profiles, ribosome-associated transcripts, and spatial translation 🧵 www.nature.com/articles/s41...
so cool! (or hot I should say)
Every once in a while we publish a paper that moves a whole field forward. I think that's the case for this one from the Bugaj lab, where they describe proteins for THERMOGENETIC control of cellular behavior. www.nature.com/articles/s41...
A temperature-inducible protein module for control of mammalian cell fate - Nature Methods
The Melt (Membrane localization using temperature) protein translocates to the plasma membrane upon temperature shift. Melt variants with a range of switching temperatures enable straightforward therm...
www.nature.com
January 23, 2025 at 6:40 PM
so cool! (or hot I should say)