Krzysztof Mikołajczyk
@kmikolajczyk.bsky.social
Assistant professor | PhD | Hirszfeld Institute of Immunology and Experimental Therapy | #glycobiology | #blood | #glycosyltransferases | #glycotime | #EVs
Reposted by Krzysztof Mikołajczyk
Elucidating lipid nanoparticle properties and structure through biophysical analyses - @guptapenn.bsky.social
@pennengineering.bsky.social @pennmedicine.bsky.social go.nature.com/4oTt639
@pennengineering.bsky.social @pennmedicine.bsky.social go.nature.com/4oTt639
Elucidating lipid nanoparticle properties and structure through biophysical analyses - Nature Biotechnology
Guidance for optimizing lipid nanoparticle formulations is derived using sophisticated biophysical techniques.
go.nature.com
October 23, 2025 at 4:24 PM
Elucidating lipid nanoparticle properties and structure through biophysical analyses - @guptapenn.bsky.social
@pennengineering.bsky.social @pennmedicine.bsky.social go.nature.com/4oTt639
@pennengineering.bsky.social @pennmedicine.bsky.social go.nature.com/4oTt639
Reposted by Krzysztof Mikołajczyk
Another piece of the #glycoRNA puzzle revealed by @raflynn5.bsky.social and @vijayrathinam.bsky.social!! RNAs with modified base acp3U activate TLR3/7, but not when acp3U is N-glycosylated. This is how cell surface/secreted glycoRNAs avoid stimulating autoimmunity.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
RNA N-glycosylation enables immune evasion and homeostatic efferocytosis - Nature
N-glycans on glycoRNAs prevent innate immune sensing of endogenous small RNAs, and the natural mechanism they use demonstrates how glycoRNAs exist on the cell surface and in the endosomal network with...
www.nature.com
August 19, 2025 at 7:43 PM
Another piece of the #glycoRNA puzzle revealed by @raflynn5.bsky.social and @vijayrathinam.bsky.social!! RNAs with modified base acp3U activate TLR3/7, but not when acp3U is N-glycosylated. This is how cell surface/secreted glycoRNAs avoid stimulating autoimmunity.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Krzysztof Mikołajczyk
Using #Caenorhabditis genes to reengineer insect cells to better mimic nematode glycosylation
academic.oup.com/glycob/advan...
academic.oup.com/glycob/advan...
Glycoengineering of nematode antigens using insect cells: a promising approach for producing bioactive vaccine antigens of the barber’s pole worm Haemonchus contortus
Abstract. The H11 antigens, located on the intestinal microvilli of Haemonchus contortus, comprise a group of homologous aminopeptidases essential for the
academic.oup.com
August 5, 2025 at 6:06 AM
Using #Caenorhabditis genes to reengineer insect cells to better mimic nematode glycosylation
academic.oup.com/glycob/advan...
academic.oup.com/glycob/advan...
Reposted by Krzysztof Mikołajczyk
Scientists have mapped individual sugar molecules on the surface of cells at a resolution once thought to be impossible for light microscopes
go.nature.com/40I9Ewv
go.nature.com/40I9Ewv
Cell's sugar coating mapped at below-nanometre resolution
Nature - Super-resolution technique works with off-the-shelf optical microscopes.
go.nature.com
August 3, 2025 at 8:59 AM
Scientists have mapped individual sugar molecules on the surface of cells at a resolution once thought to be impossible for light microscopes
go.nature.com/40I9Ewv
go.nature.com/40I9Ewv
Reposted by Krzysztof Mikołajczyk
Expression of a human Gb3/CD77 synthase in insect and human cells: comparison of activity and glycosylation https://www.biorxiv.org/content/10.1101/2025.06.09.658241v1
June 10, 2025 at 1:45 AM
Expression of a human Gb3/CD77 synthase in insect and human cells: comparison of activity and glycosylation https://www.biorxiv.org/content/10.1101/2025.06.09.658241v1
Reposted by Krzysztof Mikołajczyk
Reposted by Krzysztof Mikołajczyk
A case study on the challenges of evaluating AI predictions in biology and the implications for published results.
1/2
rachel.fast.ai/posts/2025-0...
1/2
rachel.fast.ai/posts/2025-0...
Rachel Thomas, PhD - Deep learning gets the glory, deep fact checking gets ignored
an AI researcher going back to school for immunology
rachel.fast.ai
June 5, 2025 at 12:41 AM
A case study on the challenges of evaluating AI predictions in biology and the implications for published results.
1/2
rachel.fast.ai/posts/2025-0...
1/2
rachel.fast.ai/posts/2025-0...
Reposted by Krzysztof Mikołajczyk
Marcin Czerwinski
Interesting review about glycoRNAs as immune regulators.
tinyurl.com/mvutz9ye
#glycotime
Interesting review about glycoRNAs as immune regulators.
tinyurl.com/mvutz9ye
#glycotime
June 3, 2025 at 8:41 AM
Marcin Czerwinski
Interesting review about glycoRNAs as immune regulators.
tinyurl.com/mvutz9ye
#glycotime
Interesting review about glycoRNAs as immune regulators.
tinyurl.com/mvutz9ye
#glycotime
Reposted by Krzysztof Mikołajczyk
Membrane zoning by SARS-CoV-2
doi.org/10.1038/s414...
doi.org/10.1038/s414...
Unveiling the structural spectrum of SARS-CoV-2 fusion by in situ cryo-ET - Nature Communications
This study delineates the full sequence of SARS-CoV-2 spike-mediated membrane fusion and shows how S2-targeting antibodies inhibit this process, using a near-native functional fusion system and cryo-e...
doi.org
June 4, 2025 at 8:19 AM
Membrane zoning by SARS-CoV-2
doi.org/10.1038/s414...
doi.org/10.1038/s414...
An interesting study on archaeal extracellular vesicles (AEVs) in the human gastrointestinal tract: opening new avenues for microbiome-host interaction research.
shorturl.at/dpn4v
shorturl.at/dpn4v
Proteomic and metabolomic profiling of extracellular vesicles produced by human gut archaea - Nature Communications
The composition and potential roles of extracellular vesicles released by gut archaea are poorly understood. Here, Weinberger et al. show that extracellular vesicles produced by human gut-derived meth...
shorturl.at
June 4, 2025 at 9:00 AM
An interesting study on archaeal extracellular vesicles (AEVs) in the human gastrointestinal tract: opening new avenues for microbiome-host interaction research.
shorturl.at/dpn4v
shorturl.at/dpn4v
Reposted by Krzysztof Mikołajczyk
Yeyyyy!! The preprint for Glycam-Web is out! ⬇️ Super congrats @olivercgrant.bsky.social and all! Glycam-Web is a 🔝 complex carbohydrate builder, very accurate and intuitive while fast. We use it *ALL the time*, so I am delighted that now I can cite it properly 👍🤩 doi.org/10.1101/2025...
Generating 3D Models of Carbohydrates with GLYCAM-Web
The carbohydrate 3D structure-prediction tools (builders) at GLYCAM-Web ([glycam.org][1]) are widely used for generating experimentally-consistent 3D structures of oligosaccharides suitable for data i...
doi.org
May 22, 2025 at 8:53 AM
Yeyyyy!! The preprint for Glycam-Web is out! ⬇️ Super congrats @olivercgrant.bsky.social and all! Glycam-Web is a 🔝 complex carbohydrate builder, very accurate and intuitive while fast. We use it *ALL the time*, so I am delighted that now I can cite it properly 👍🤩 doi.org/10.1101/2025...
Reposted by Krzysztof Mikołajczyk
MALDI imaging of lipids, metabolites and glycans all on the same section! From Ramon Sun and colleagues. www.nature.com/articles/s41...
Spatial mapping of the brain metabolome lipidome and glycome - Nature Communications
Clarke et al. presents a framework for spatial analysis of the metabolome, lipidome, and glycome from a single tissue section using mass spectrometry imaging. Applying this approach, they revealed reg...
www.nature.com
May 12, 2025 at 7:34 PM
MALDI imaging of lipids, metabolites and glycans all on the same section! From Ramon Sun and colleagues. www.nature.com/articles/s41...
Reposted by Krzysztof Mikołajczyk
Fantastic new study from Raphael Rodriguez' lab shows that induced proximity concepts can be used to induce Ferroptosis! Inducing proximity of lysosomal iron and lipids induces lipid peroxidation! What a cool concept! Have a look at our News/Views with @olzmannlab.bsky.social shorturl.at/cbc8D
Lipid-degrading small molecule kills cancer cells by ferroptosis
A molecule designed to activate iron locked up in organelles called lysosomes and thereby induce cell death might offer a way to tackle treatment-resistant cancer.
shorturl.at
May 8, 2025 at 1:17 AM
Fantastic new study from Raphael Rodriguez' lab shows that induced proximity concepts can be used to induce Ferroptosis! Inducing proximity of lysosomal iron and lipids induces lipid peroxidation! What a cool concept! Have a look at our News/Views with @olzmannlab.bsky.social shorturl.at/cbc8D
Reposted by Krzysztof Mikołajczyk
Check it out - amazing new work by @raflynn5.bsky.social and Kostas Tzelepis labs, discovery of a cell surface RNA/glycoRNA binding protein that is also a cancer antigen, new target for antibody therapy!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Treatment of acute myeloid leukemia models by targeting a cell surface RNA-binding protein - Nature Biotechnology
An RNA-binding protein on leukemia cells provides an effective target in mouse models.
www.nature.com
April 25, 2025 at 5:19 AM
Check it out - amazing new work by @raflynn5.bsky.social and Kostas Tzelepis labs, discovery of a cell surface RNA/glycoRNA binding protein that is also a cancer antigen, new target for antibody therapy!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Krzysztof Mikołajczyk
"Our LPD-3 complex structural data reveal protein–lipid interactions that suggest a model for how the native LPD-3 complex mediates bulk lipid transport and provides a foundation for mechanistic studies of bridge-like lipid transport proteins (BLTPs)." 🤯🤯😍
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Structural basis of lipid transfer by a bridge-like lipid-transfer protein - Nature
The LPD-3 complex structure reveals protein–lipid interactions that suggest a model for how the native LPD-3 complex mediates bulk lipid transport and provides a foundation for mechanistic studies of ...
www.nature.com
April 25, 2025 at 7:48 AM
"Our LPD-3 complex structural data reveal protein–lipid interactions that suggest a model for how the native LPD-3 complex mediates bulk lipid transport and provides a foundation for mechanistic studies of bridge-like lipid transport proteins (BLTPs)." 🤯🤯😍
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Krzysztof Mikołajczyk
Biallelic loss of SEC24C proteins (elements of COP IIcoat protein complex II which participate in intracellular trafficking) causes i.a. primary microcephaly, brain anomalies, epilepsy and hearing loss, but also deregulation of N-glycosylation. New type of CDG?
tinyurl.com/3cyfyhua
#glycotime
tinyurl.com/3cyfyhua
#glycotime
March 26, 2025 at 6:38 PM
Biallelic loss of SEC24C proteins (elements of COP IIcoat protein complex II which participate in intracellular trafficking) causes i.a. primary microcephaly, brain anomalies, epilepsy and hearing loss, but also deregulation of N-glycosylation. New type of CDG?
tinyurl.com/3cyfyhua
#glycotime
tinyurl.com/3cyfyhua
#glycotime
Reposted by Krzysztof Mikołajczyk
Great review about gene therapy for hemophilia – from basic science to first approvals of “One-and-Done” therapies. Must-read!
tinyurl.com/52jnjzcp
tinyurl.com/52jnjzcp
March 30, 2025 at 7:08 PM
Great review about gene therapy for hemophilia – from basic science to first approvals of “One-and-Done” therapies. Must-read!
tinyurl.com/52jnjzcp
tinyurl.com/52jnjzcp
Reposted by Krzysztof Mikołajczyk
Shi et al show ⬇️ that mucin-domain glycoproteins in the brain endothelial glycocalyx are highly dysregulated during ageing and neurodegenerative disease, leading to severe perturbations of the BBB function
#glycotime at its best! 💥🧠🍬🎉
doi.org/10.1038/s415...
#glycotime at its best! 💥🧠🍬🎉
doi.org/10.1038/s415...
Glycocalyx dysregulation impairs blood–brain barrier in ageing and disease - Nature
Disruption of mucin-domain glycoprotein expression and function in the endothelial glycocalyx are associated with ageing and Alzheimer’s disease, leading to dysregulated blood–brain barrier function.
doi.org
March 3, 2025 at 9:38 AM
Shi et al show ⬇️ that mucin-domain glycoproteins in the brain endothelial glycocalyx are highly dysregulated during ageing and neurodegenerative disease, leading to severe perturbations of the BBB function
#glycotime at its best! 💥🧠🍬🎉
doi.org/10.1038/s415...
#glycotime at its best! 💥🧠🍬🎉
doi.org/10.1038/s415...
Reposted by Krzysztof Mikołajczyk
Check out our web tool for searching for interactors of your favorite cell surface protein, developed by undergrad Pinyu Liao and postdoc postdoc Brendan Floyd @stanford-chemh.bsky.social
cellsurfacemap.org
cellsurfacemap.org
Cell Surface Map
Cell Surface Map - Distribution and organization data on immune cell surface proteins
cellsurfacemap.org
February 21, 2025 at 1:56 AM
Check out our web tool for searching for interactors of your favorite cell surface protein, developed by undergrad Pinyu Liao and postdoc postdoc Brendan Floyd @stanford-chemh.bsky.social
cellsurfacemap.org
cellsurfacemap.org
Reposted by Krzysztof Mikołajczyk
Our Lectin-PAINT work is out! A super-resolution approach to study membrane-exposed glycans with nm resolution and in live cells. Multiplexed 8-colors imaging mapping heterogeneity in "glycotype" with single molecule resolution. Fantastic work of our Marrit! #Glycotime www.nature.com/articles/s42...
Multiplexed Lectin-PAINT super-resolution microscopy enables cell glycotyping - Communications Biology
A super-resolution method for single-molecule detection and tracking of glycans on the surface of living cells is developed. Glycan’s abundance and mobility are used to explore differences in glycosyl...
www.nature.com
February 21, 2025 at 8:13 AM
Our Lectin-PAINT work is out! A super-resolution approach to study membrane-exposed glycans with nm resolution and in live cells. Multiplexed 8-colors imaging mapping heterogeneity in "glycotype" with single molecule resolution. Fantastic work of our Marrit! #Glycotime www.nature.com/articles/s42...
Reposted by Krzysztof Mikołajczyk
Our new paper in print describes a new approach: release and analysis of N-glycans in less than 24 hours. A perfect approach for those that are glycan-curious as it does not require changing any of your proteomics buffers! 1/5
#glycotime #teammassspec
pubs.acs.org/doi/10.1021/...
#glycotime #teammassspec
pubs.acs.org/doi/10.1021/...
Swift Universal Glycan Acquisition (SUGA) Enables Quantitative Glycan Profiling across Diverse Sample Types
The ability to rapidly analyze complex mixtures of glycans derived from glycoproteins is important, but techniques are often laborious and require multiple glycan derivatization steps. Here, we descri...
pubs.acs.org
February 21, 2025 at 6:55 AM
Our new paper in print describes a new approach: release and analysis of N-glycans in less than 24 hours. A perfect approach for those that are glycan-curious as it does not require changing any of your proteomics buffers! 1/5
#glycotime #teammassspec
pubs.acs.org/doi/10.1021/...
#glycotime #teammassspec
pubs.acs.org/doi/10.1021/...
Reposted by Krzysztof Mikołajczyk
The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out.
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
Imaging of cellular dynamics from a whole organism to subcellular scale with self-driving, multiscale microscopy
Nature Methods - A self-driving multiresolution light-sheet microscope enables the simultaneous observation and quantification of cellular and subcellular dynamics in the context of intact and...
www.nature.com
February 12, 2025 at 1:45 PM
The self-driving multiscale microscope from @daetwylerstephan.bsky.social is out.
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
It can image an entire zebrafish embryo longitudinally and follow a volume of interest over time with high resolution.
We used it to study cancer-immune cell interactions.
www.nature.com/articles/s41...
Reposted by Krzysztof Mikołajczyk
ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🍬🍭🔬
For the first time, we’re able to study the molecular architecture of the glycocalyx at single-sugar resolution—a longstanding challenge in glycobiology! #glycotime
Preprint and #bluetorial below!!
For the first time, we’re able to study the molecular architecture of the glycocalyx at single-sugar resolution—a longstanding challenge in glycobiology! #glycotime
Preprint and #bluetorial below!!
February 11, 2025 at 11:29 AM
ÅNGSTRÖM-RESOLUTION IMAGING OF CELL-SURFACE GLYCANS 🍬🍭🔬
For the first time, we’re able to study the molecular architecture of the glycocalyx at single-sugar resolution—a longstanding challenge in glycobiology! #glycotime
Preprint and #bluetorial below!!
For the first time, we’re able to study the molecular architecture of the glycocalyx at single-sugar resolution—a longstanding challenge in glycobiology! #glycotime
Preprint and #bluetorial below!!
Reposted by Krzysztof Mikołajczyk
This is an amazing achievement - angstrom scale imagine of glycan molecules, what a great time for #glycotime. Congrats Leonhard Möckl!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Angstrom-resolution imaging of cell-surface glycans
Glycobiology is rooted in the study of monosaccharides, Angstrom-sized molecules that are the building blocks of intricate glycosylation patterns. Glycosylated biomolecules form the glycocalyx, a dens...
www.biorxiv.org
February 10, 2025 at 8:30 AM
This is an amazing achievement - angstrom scale imagine of glycan molecules, what a great time for #glycotime. Congrats Leonhard Möckl!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Krzysztof Mikołajczyk
🧬🧪Protein codes promote selective subcellular compartmentalization | Science www.science.org/doi/10.1126/...
Henry Kilgore @itamarchinn.bsky.social @pgmikhael.bsky.social Ilan Mitnikov, et al. @aihealthmit.bsky.social @whiteheadinstitute.bsky.social @mitofficial.bsky.social
Henry Kilgore @itamarchinn.bsky.social @pgmikhael.bsky.social Ilan Mitnikov, et al. @aihealthmit.bsky.social @whiteheadinstitute.bsky.social @mitofficial.bsky.social
Protein codes promote selective subcellular compartmentalization
Cells have evolved mechanisms to distribute ~10 billion protein molecules to subcellular compartments where diverse proteins involved in shared functions must assemble. Here, we demonstrate that prote...
www.science.org
February 8, 2025 at 11:39 PM
🧬🧪Protein codes promote selective subcellular compartmentalization | Science www.science.org/doi/10.1126/...
Henry Kilgore @itamarchinn.bsky.social @pgmikhael.bsky.social Ilan Mitnikov, et al. @aihealthmit.bsky.social @whiteheadinstitute.bsky.social @mitofficial.bsky.social
Henry Kilgore @itamarchinn.bsky.social @pgmikhael.bsky.social Ilan Mitnikov, et al. @aihealthmit.bsky.social @whiteheadinstitute.bsky.social @mitofficial.bsky.social