Kyo Bin Kang
@kyobinkang.bsky.social
A natural product chemist using mass spec to discover chemical diversities in nature.
Working at Sookmyung Women's University, Seoul, Korea as an associate professor.
Working at Sookmyung Women's University, Seoul, Korea as an associate professor.
Happy to see this paper out. My colleague Wonyong Kim spent a long time revealing the biosynthetic genes of lichen depsides and depsidones, and here is what we found.
doi.org/10.1111/nph....
doi.org/10.1111/nph....
Deciphering the biosynthetic pathways of lichen acids
Depsides and depsidones are polyketide-derived lichen acids widely distributed in lichen thalli, yet the biosynthetic gene clusters (BGCs) responsible for their production remain poorly understood. ...
doi.org
November 13, 2025 at 8:46 AM
Happy to see this paper out. My colleague Wonyong Kim spent a long time revealing the biosynthetic genes of lichen depsides and depsidones, and here is what we found.
doi.org/10.1111/nph....
doi.org/10.1111/nph....
A new workhorse has arrived! Our lab installed a Waters Xevo G3 Q/ToF today. Looking forward to play with it for observing metabolites!!
October 29, 2025 at 8:28 AM
A new workhorse has arrived! Our lab installed a Waters Xevo G3 Q/ToF today. Looking forward to play with it for observing metabolites!!
I have been elected as a Board of Director member of @metsoc.bsky.social. From tomorrow, I will serve for the society for 2 years. Super excited!
September 30, 2025 at 10:32 AM
I have been elected as a Board of Director member of @metsoc.bsky.social. From tomorrow, I will serve for the society for 2 years. Super excited!
Dear all of my colleagues working on lipidomics,
As an editorial board member of Scientific Data, I am serving as the collection (Lipidomics)’s Guest Editor and eager to read your submission.
Learn more about the collection and how to contribute: go.nature.com/4mxI9yu
As an editorial board member of Scientific Data, I am serving as the collection (Lipidomics)’s Guest Editor and eager to read your submission.
Learn more about the collection and how to contribute: go.nature.com/4mxI9yu
Lipidomics
This Scientific Data Collection welcomes descriptions of any technique relevant to lipidomics research, including mass spectrometry, NMR, theoretical studies, ...
go.nature.com
September 16, 2025 at 5:40 AM
Dear all of my colleagues working on lipidomics,
As an editorial board member of Scientific Data, I am serving as the collection (Lipidomics)’s Guest Editor and eager to read your submission.
Learn more about the collection and how to contribute: go.nature.com/4mxI9yu
As an editorial board member of Scientific Data, I am serving as the collection (Lipidomics)’s Guest Editor and eager to read your submission.
Learn more about the collection and how to contribute: go.nature.com/4mxI9yu
Reposted by Kyo Bin Kang
We are looking for a 3-year postdoc to work with Daniel Probst, Justin van der Hooft and myself on an exciting project involving federated learning and integrative omics for discovery of new antibiotics from natural products.
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Apply here: www.wur.nl/en/vacancy/p...
Please share!
www.wur.nl
September 8, 2025 at 9:07 AM
We are looking for a 3-year postdoc to work with Daniel Probst, Justin van der Hooft and myself on an exciting project involving federated learning and integrative omics for discovery of new antibiotics from natural products.
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Super excited to introduce our recent work published in @natprot.nature.com today. Here we introduce a step-by-step protocol for applying multiple data analysis workflows in GNPS2 for drug metabolism studies.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A versatile toolkit for drug metabolism studies with GNPS2: from drug development to clinical monitoring - Nature Protocols
This protocol extension guides users in identifying candidate drug metabolites without prior knowledge by analyzing tandem mass spectrometry data in the web-based molecular networking tool GNPS2.
www.nature.com
September 8, 2025 at 2:55 PM
Super excited to introduce our recent work published in @natprot.nature.com today. Here we introduce a step-by-step protocol for applying multiple data analysis workflows in GNPS2 for drug metabolism studies.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
It is always great to see students' achievement. Two PhD students in my lab, Kyungha and Yukyung, won the PhD student fellowship from the Ministry of Education of Korea. Each will be funded 50m KRW (about 36000USD) for 2 years. Congratulations!
August 28, 2025 at 8:10 AM
It is always great to see students' achievement. Two PhD students in my lab, Kyungha and Yukyung, won the PhD student fellowship from the Ministry of Education of Korea. Each will be funded 50m KRW (about 36000USD) for 2 years. Congratulations!
Reposted by Kyo Bin Kang
Interested in a co-authorship?
We’re building a tool for repository-scale untargeted #metabolomics and #exposomics of #environmental data. To make it the best it can be, we’re looking for people willing to share high-resolution LC-MS/MS (DDA) data from #water, #soil, #sediment, and related samples.
We’re building a tool for repository-scale untargeted #metabolomics and #exposomics of #environmental data. To make it the best it can be, we’re looking for people willing to share high-resolution LC-MS/MS (DDA) data from #water, #soil, #sediment, and related samples.
August 26, 2025 at 7:51 PM
Interested in a co-authorship?
We’re building a tool for repository-scale untargeted #metabolomics and #exposomics of #environmental data. To make it the best it can be, we’re looking for people willing to share high-resolution LC-MS/MS (DDA) data from #water, #soil, #sediment, and related samples.
We’re building a tool for repository-scale untargeted #metabolomics and #exposomics of #environmental data. To make it the best it can be, we’re looking for people willing to share high-resolution LC-MS/MS (DDA) data from #water, #soil, #sediment, and related samples.
I run for this year's @metsoc.bsky.social Board of Director election. Please see my and other candidates' statement of purpose and vote for the society!
metabolomicssociety.org/board-commit...
metabolomicssociety.org/board-commit...
2025 Board Of Directors Election – Metabolomics Society
metabolomicssociety.org
August 22, 2025 at 12:47 AM
I run for this year's @metsoc.bsky.social Board of Director election. Please see my and other candidates' statement of purpose and vote for the society!
metabolomicssociety.org/board-commit...
metabolomicssociety.org/board-commit...
My lab is known as a mass spectromerryblab, but we (sometimes) do NMR metabolomics. In this article published in J Pharm Biomed Anal today, we evaluated the applicability of 1H NMR metabomics for quality control of East Asian Traditional Medicine formulation products.
doi.org/10.1016/j.jp...
doi.org/10.1016/j.jp...
Redirecting
doi.org
August 6, 2025 at 3:15 AM
My lab is known as a mass spectromerryblab, but we (sometimes) do NMR metabolomics. In this article published in J Pharm Biomed Anal today, we evaluated the applicability of 1H NMR metabomics for quality control of East Asian Traditional Medicine formulation products.
doi.org/10.1016/j.jp...
doi.org/10.1016/j.jp...
Yesterday @roman-bushuiev.bsky.social visited our lab. He gave a seminar talk about his recent work on DreaMS (www.nature.com/articles/s41...), and provided a hands-on training to my lab members. Looking forward to what we will discover using this awesome tool!
August 1, 2025 at 8:37 AM
Yesterday @roman-bushuiev.bsky.social visited our lab. He gave a seminar talk about his recent work on DreaMS (www.nature.com/articles/s41...), and provided a hands-on training to my lab members. Looking forward to what we will discover using this awesome tool!
Reposted by Kyo Bin Kang
We just crossed the 800,000 files mark in Pan-ReDU. That's 800,000 public #metabolomics raw data files with harmonized metadata that can be re-analyzed to learn about new molecules and bio-distributions. 🎉 redu.gnps2.org
July 9, 2025 at 12:55 AM
We just crossed the 800,000 files mark in Pan-ReDU. That's 800,000 public #metabolomics raw data files with harmonized metadata that can be re-analyzed to learn about new molecules and bio-distributions. 🎉 redu.gnps2.org
Reposted by Kyo Bin Kang
Folddisco finds similar (dis)continuous 3D motifs in large protein structure databases. Its efficient index enables fast uncharacterized active site annotation, protein conformational state analysis and PPI interface comparison. 1/9🧶🧬
📄 www.biorxiv.org/content/10.1...
🌐 search.foldseek.com/folddisco
📄 www.biorxiv.org/content/10.1...
🌐 search.foldseek.com/folddisco
July 7, 2025 at 8:21 AM
Folddisco finds similar (dis)continuous 3D motifs in large protein structure databases. Its efficient index enables fast uncharacterized active site annotation, protein conformational state analysis and PPI interface comparison. 1/9🧶🧬
📄 www.biorxiv.org/content/10.1...
🌐 search.foldseek.com/folddisco
📄 www.biorxiv.org/content/10.1...
🌐 search.foldseek.com/folddisco
Collaborating with Prof. Hangun Kim, we discovered that monoterpene indole alkaloids from Vietnamese plant Uncaria scandens inhibit cancer cell motility by suppressing epithelial-mesenchymal transition via integrin α4-mediated signaling.
doi.org/10.1038/s415...
doi.org/10.1038/s415...
Strictosamide and mitraphylline inhibit cancer cell motility by suppressing epithelial-mesenchymal transition via integrin α4-mediated signaling - Scientific Reports
Scientific Reports - Strictosamide and mitraphylline inhibit cancer cell motility by suppressing epithelial-mesenchymal transition via integrin α4-mediated signaling
doi.org
July 2, 2025 at 1:20 AM
Collaborating with Prof. Hangun Kim, we discovered that monoterpene indole alkaloids from Vietnamese plant Uncaria scandens inhibit cancer cell motility by suppressing epithelial-mesenchymal transition via integrin α4-mediated signaling.
doi.org/10.1038/s415...
doi.org/10.1038/s415...
In this article published today in @metabolomicsj.bsky.social, we introduce the Korea MetAbolomics data rePository (KMAP), and describe what our team has pushed hard and what we will do, to make it standardized and harmonized with the other data repository.
doi.org/10.1007/s113...
doi.org/10.1007/s113...
Introducing Korea metabolomics data repository (KMAP): bridging Korean metabolomics data to global data sharing infrastructure - Metabolomics
The Korea MetAbolomics data rePository (KMAP), available at https://kbds.re.kr/KMAP , is a public repository for metabolomics datasets developed as a part of the Korea BioData Station (K-BDS). KMAP ar...
doi.org
June 22, 2025 at 3:41 PM
In this article published today in @metabolomicsj.bsky.social, we introduce the Korea MetAbolomics data rePository (KMAP), and describe what our team has pushed hard and what we will do, to make it standardized and harmonized with the other data repository.
doi.org/10.1007/s113...
doi.org/10.1007/s113...
Participated in the MetabolomeXchange stakeholder meeting, one day before #metabolomics2025. So many valuable discussions!
June 21, 2025 at 9:11 PM
Participated in the MetabolomeXchange stakeholder meeting, one day before #metabolomics2025. So many valuable discussions!
Flying to Prague for #Metabolomics2024, the MetabolomeXchange meeting, and some other things. See you soon dear Metabolomics folks!
June 18, 2025 at 12:52 AM
Flying to Prague for #Metabolomics2024, the MetabolomeXchange meeting, and some other things. See you soon dear Metabolomics folks!
Reposted by Kyo Bin Kang
Finally online and open access!
This revised version has a slightly different title and contains a number of additional supplementary figures, mainly in vitro enzyme assays. Kept me quite busy in the lab at the end of last year!
#PlantScience
#natprod
www.nature.com/articles/s41...
This revised version has a slightly different title and contains a number of additional supplementary figures, mainly in vitro enzyme assays. Kept me quite busy in the lab at the end of last year!
#PlantScience
#natprod
www.nature.com/articles/s41...
Ipecac alkaloid biosynthesis in two evolutionarily distant plants - Nature Chemical Biology
Ipecac alkaloids are plant-derived compounds historically used to induce vomiting. Here the authors elucidate how two evolutionary distant plant species have evolved to produce the same ipecac alkaloi...
www.nature.com
June 3, 2025 at 3:41 PM
Finally online and open access!
This revised version has a slightly different title and contains a number of additional supplementary figures, mainly in vitro enzyme assays. Kept me quite busy in the lab at the end of last year!
#PlantScience
#natprod
www.nature.com/articles/s41...
This revised version has a slightly different title and contains a number of additional supplementary figures, mainly in vitro enzyme assays. Kept me quite busy in the lab at the end of last year!
#PlantScience
#natprod
www.nature.com/articles/s41...
Reposted by Kyo Bin Kang
There's been a rich connection between electron diffraction and the nature of the chemical bond over the years. Here, we've shown how you can leverage electron diffraction to discover and characterize novel natural products.
@caltechcce.bsky.social @uclacb.bsky.social
pubs.acs.org/doi/10.1021/...
@caltechcce.bsky.social @uclacb.bsky.social
pubs.acs.org/doi/10.1021/...
Microcrystal Electron Diffraction-Guided Discovery of Fungal Metabolites
Nature remains a vast repository of complex and functional metabolites whose structural characterization continues to drive innovations in pharmaceuticals, agrochemicals, and materials science. The cr...
pubs.acs.org
June 3, 2025 at 10:06 PM
There's been a rich connection between electron diffraction and the nature of the chemical bond over the years. Here, we've shown how you can leverage electron diffraction to discover and characterize novel natural products.
@caltechcce.bsky.social @uclacb.bsky.social
pubs.acs.org/doi/10.1021/...
@caltechcce.bsky.social @uclacb.bsky.social
pubs.acs.org/doi/10.1021/...
Reposted by Kyo Bin Kang
How can physics contribute to understanding the evolution of complexity? Although great results have been produced over the last decades, some recent "theories" appear to ignore key ideas from evolutionary theory and are seriously flawed. Check this paper in PNAS www.pnas.org/doi/abs/10.1...
May 31, 2025 at 3:55 PM
How can physics contribute to understanding the evolution of complexity? Although great results have been produced over the last decades, some recent "theories" appear to ignore key ideas from evolutionary theory and are seriously flawed. Check this paper in PNAS www.pnas.org/doi/abs/10.1...
Reposted by Kyo Bin Kang
This paper represents a great effort by @roman-bushuiev.bsky.social and his brother @anton-bushuiev.bsky.social. The DreaMS foundation model for mass spectra of small molecules now opens lots of avenues for possible downstream applications. It might be a game changer for computational metabolomics.
Self-supervised learning of molecular representations from millions of tandem mass spectra using DreaMS - @pluskal-lab.org @iocbprague.bsky.social go.nature.com/4k1n5iC
Self-supervised learning of molecular representations from millions of tandem mass spectra using DreaMS - Nature Biotechnology
A transformer model is used to construct the DreaMS Atlas—a molecular network of 201 million MS/MS spectra.
go.nature.com
May 24, 2025 at 8:21 AM
This paper represents a great effort by @roman-bushuiev.bsky.social and his brother @anton-bushuiev.bsky.social. The DreaMS foundation model for mass spectra of small molecules now opens lots of avenues for possible downstream applications. It might be a game changer for computational metabolomics.
Excited to introduce our lab's latest work describing how bacterial siderophores can provide an advantage to their producers. They can inhibit competitors' specialized metabolism by causing iron deficiency. 1/6
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Siderophores can alter the population dynamics of fungal-bacterial communities by inhibiting specialized metabolism
Siderophores are microbial metabolites with a strong affinity for Fe(III) ions, in addition to other roles beyond iron acquisition. In this study, we propose that bacillibactin, a siderophore produced...
www.biorxiv.org
May 14, 2025 at 5:41 AM
Excited to introduce our lab's latest work describing how bacterial siderophores can provide an advantage to their producers. They can inhibit competitors' specialized metabolism by causing iron deficiency. 1/6
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Kyo Bin Kang
I am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.
May 12, 2025 at 6:10 PM
I am thrilled to share after years of work/procrastination that the MassQL manuscript is finally published in @natmethods.nature.com - "A universal language for finding mass spectrometry data patterns". This was an team effort from all co-authors that helped shape MassQL and how it could be used.
It was so fun to be a part of this project. Updating MIADB, we also retrieved MS/MS spectral features specific to each MIA subclasses, which can be applied to MassQL for subclass-level annotation.
It is with tremendous emotion that I share with you our recent work @jcheminf.bsky.social rb.gy/gynwlf that resulted in the update of the MIADB and the generation of valuable spectrometric signatures that could be used as #MassQL queries 🙏
S. Szwarc @univparissaclay.bsky.social @adafede.bsky.social
S. Szwarc @univparissaclay.bsky.social @adafede.bsky.social
Translating community-wide spectral library into actionable chemical knowledge: a proof of concept with monoterpene indole alkaloids - Journal of Cheminformatics
With over 3000 representatives, the monoterpene indole alkaloids (MIAs) class is among the most diverse families of plant natural products. The MS/MS spectral space exploration of these complex compou...
rb.gy
April 29, 2025 at 12:12 AM
It was so fun to be a part of this project. Updating MIADB, we also retrieved MS/MS spectral features specific to each MIA subclasses, which can be applied to MassQL for subclass-level annotation.
Reposted by Kyo Bin Kang
With the #ASMS2025 app now available, here is a quick summary of what I've found so far from the abstracts:
Sciex - New ZenoTOF 8600, Echo-DMS
Thermo - New Exploris, New Astral (one of these is named Excedion), New OptiFlow source
Agilent - New single quad
Bruker - OmniTIMS, new triple quad, new LC
Sciex - New ZenoTOF 8600, Echo-DMS
Thermo - New Exploris, New Astral (one of these is named Excedion), New OptiFlow source
Agilent - New single quad
Bruker - OmniTIMS, new triple quad, new LC
April 21, 2025 at 8:06 PM
With the #ASMS2025 app now available, here is a quick summary of what I've found so far from the abstracts:
Sciex - New ZenoTOF 8600, Echo-DMS
Thermo - New Exploris, New Astral (one of these is named Excedion), New OptiFlow source
Agilent - New single quad
Bruker - OmniTIMS, new triple quad, new LC
Sciex - New ZenoTOF 8600, Echo-DMS
Thermo - New Exploris, New Astral (one of these is named Excedion), New OptiFlow source
Agilent - New single quad
Bruker - OmniTIMS, new triple quad, new LC