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AquOmixLab @aquomixlab.bsky.social · 1d

Last week we had the pleasure to host Constantina Varnava, PhD candidate of Iro Tsipa's group at the University of #Cyprus. We had fun analyzing MS datasets for #microbial #metabolites.

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Tri Kaloudis @trikaloudis.bsky.social · 5d

The #IFHAB Workshop 16-17 October at Hamilton #Ontario. #Freshwater #HABs. Still time to register. www.ifhabworkshop.com

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Cyanotrans @cyanotrans.bsky.social · 7d

Impact of Salinity on Cell Surface Chemistry of Cyanobacteria From Freshwater, Marine and Alkaline Environments: A Hidden Phosphorus Engine enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

Impact of Salinity on Cell Surface Chemistry of Cyanobacteria From Freshwater, Marine and Alkaline Environments: A Hidden Phosphorus Engine

The study examines the impact of salinity on surface properties of freshwater Synechocystis sp. PCC6803, marine Synechococcus sp. PCC8806 and alkaliphilic Spirulina platensis. The differences in memb...

enviromicro-journals.onlinelibrary.wiley.com

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tpetzoldt.bsky.social @tpetzoldt.bsky.social · 7d

Huge congrats to Sylvia Bonilla 🏆 on winning the Kilham Memorial Lecture Award from SIL! Her vital work on toxic cyanobacteria across Latin America is attracting high interest from researchers across Europe and worldwide. 🔬🌍

@cyanoaction.bsky.social @ictc13.bsky.social

SIL | International Society of Limnology @sil-limnology.bsky.social · 10d

Join us in congratulating Sylvia Bonilla, winner of the Kilham Memorial Lecture Award! 🎉

To be delivered during the joint ASLO–SIL 2026 Congress in Montreal.
We look forward to celebrating her contributions to limnology and cyanobacteria research with the SIL community! 💧

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Tri Kaloudis @trikaloudis.bsky.social · 13d

🧪📣 Save the date for SETAC Europe 2016 @setac.bsky.social #SETACMaastricht !
Our Session title: "Integrating #Genomics, #Metabolomics, and Control Strategies to Address Harmful Algal and #Cyanobacterial Blooms", Chaired by Petra Visser, Dail Laughinghouse, @anastasiahiskia.bsky.social.

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AquOmixLab @aquomixlab.bsky.social · 13d

Save the date for an exciting #HABs Session at #SETACMaastricht 👇

Tri Kaloudis @trikaloudis.bsky.social · 13d

🧪📣 Save the date for SETAC Europe 2016 @setac.bsky.social #SETACMaastricht !
Our Session title: "Integrating #Genomics, #Metabolomics, and Control Strategies to Address Harmful Algal and #Cyanobacterial Blooms", Chaired by Petra Visser, Dail Laughinghouse, @anastasiahiskia.bsky.social.

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Tri Kaloudis @trikaloudis.bsky.social · Aug 20

Brilliant! 50 years after reverse spectral matching in GC-MS, a refined reverse search strategy to improve annotation rates. By @shipei-xing.bsky.social @vincentlamoureux.bsky.social Haoqi N. Zhao @yelabiead.bsky.social @mingxunwang.bsky.social @pieterdorrestein.bsky.social
doi.org/10.1021/acs....

Reverse Spectral Search Reimagined: A Simple but Overlooked Solution for Chimeric Spectral Annotation

The exponential growth of untargeted metabolomics data, now reaching billions of mass spectra in public repositories, benefits from reannotation strategies for data reuse. While tandem mass spectromet...

doi.org

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Tri Kaloudis @trikaloudis.bsky.social · Aug 18

Great work by @helenamrusso.bsky.social and Wilhan Nunes on the CMMC @microbialcmmc.bsky.social analysis dashboard in @gnps2.bsky.social . It is very exciting to explore results in new ways ! #teammassspec

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Daniel Petras @daniel-petras.bsky.social · Jul 27

Implementing the MCheM setup is pretty easy, and all reagents and hardware components are commercially available and relatively cheap.
MCheM data analysis is supported in @mzmine.bsky.social @gnps2.bsky.social and SIRIUS (@brightgiant.bsky.social) and free for academic researchers.

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Daniel Petras @daniel-petras.bsky.social · Jul 27

Thanks so much to everybody who made this interdisciplinary project possible. And epically the editor and the three reviewers at @natcomms.nature.com for their throughout positive feedback.

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Daniel Petras @daniel-petras.bsky.social · Jul 27

New paper from the group. Together with Chambers Hughes, Giovanni Vitale and our amazing collaborators, we developed a multiplexed chemical metabolomics workflow to assign functional groups in non-targeted LC-MS/MS data:

www.nature.com/articles/s41...

Behind the paper story:
go.nature.com/45ljV4d

Enhancing tandem mass spectrometry-based metabolite annotation with online chemical labeling - Nature Communications

To improve annotation in non-targeted metabolomics studies, authors develop a Multiplexed Chemical Metabolomics (MCheM) platform, combining post-column derivatization with integrated data processing. ...

www.nature.com

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HUMAN Doctoral Network @human-dn.bsky.social · Jul 18

#WeekendRead

DreaMS — a self-supervised transformer model trained on 700M+ unannotated MS/MS spectra. It learns rich molecular representations directly from raw spectral data.

Curious? 🔗bit.ly/43BDjYV

#metabolomics #AI #machinelearning #deeplearning #annotation

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Bavarian Center for Biomolecular Mass Spectrometry @baybioms.bsky.social · Jul 22

🧵(4/6)

🌟 There will be additional talks by our #local "#heroes" in the #Bavarian #TeamMassSpec community!

A great mixture between all the pillars of our team, #Proteomics, #Metabolomics, #Bioinformatics, and applied #MassSpec techniques for a vast diversity of biological questions.

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asofiahcosta.bsky.social @asofiahcosta.bsky.social · Jul 22

Just out: Latest selection of novel methods for #metabolomics and #lipidomics

biomed.news/bims-metlip/...

A collaboration with @biomednews.bsky.social

jerry from tom and jerry is reading a book while laying on a lounge chair

ALT: jerry from tom and jerry is reading a book while laying on a lounge chair

media.tenor.com

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UMR CARRTEL @umrcarrtel.bsky.social · Jul 23

Our new paper in Molecular Ecology:
Omics to Study and Manage Aquatic Environments: A Snapshot From the AquaEcOmics Meeting (Evian-les-Bains, 2025). onlinelibrary.wiley.com/doi/10.1111/...
#omics #water #ecology #metabarcoding #metagenomics #metabolomics #biodiversity

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unitsaq.bsky.social @unitsaq.bsky.social · Jul 24

Distilled rule of thumb for optimal Cosine cutoffs at various n matching MS2 fragments in #metabolomics ID:

Cosine > 0.90 - 0.05*MMP

Aligns well with ~80% at 3 matched fragments I learned before.

From Fig4a here www.nature.com/articles/s41...

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Kermit Murray @kkmurray.bsky.social · Jun 21

(JASMS) [ASAP] Advanced Computational Approaches for Unraveling Transformation Pathways of Organic Micropollutants in Aquatic Environments: Insights from the Photodegradation of Ciprofloxacin: Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00088 (RSS) #MassSpecRSS #JASMS

[ASAP] Advanced Computational Approaches for Unraveling Transformation Pathways of Organic Micropollutants in Aquatic Environments: Insights from the Photodegradation of Ciprofloxacin

Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00088

dlvr.it

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Tri Kaloudis @trikaloudis.bsky.social · Jul 16

Our new paper on the aroma of #Spirulina is out now in IJMS! A #sensomics approach to find out what makes it smell so unique. Congrats to Katerina Paraskevopoulou, M. Steinhaus, and V. Mall! A great collab between LSB at TUM and NCSR Demokritos. @mdpiopenaccess.bsky.social
doi.org/10.3390/ijms...

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Genes & Diseases Journal @genesndiseases.bsky.social · Jul 15

This article reviews #metabolomics data #preprocessing methods, discusses their pros and cons, and emphasizes that the choice of method depends on the biological hypothesis, #dataset characteristics, and the selected statistical data analysis method. @uicdom.bsky.social

#MostRead: buff.ly/tQpaQns

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SEES Lab @seeslab.bsky.social · Jul 14

New paper out in Briefings in Bioinformatics

📰SingleFrag: a deep learning tool for MS/MS fragment and spectral prediction and metabolite annotation academic.oup.com/bib/article/...

SingleFrag: a deep learning tool for MS/MS fragment and spectral prediction and metabolite annotation

Abstract. Metabolite and small molecule identification via tandem mass spectrometry (MS/MS) involves matching experimental spectra with prerecorded spectra

academic.oup.com

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Simons Foundation @simonsfoundation.org · Jul 3

Congratulations to our six new 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution! See full list: www.simonsfoundation.org/2025/07/01/a... #science @systemsecology.bsky.social @daniel-petras.bsky.social @kendraturkkubo.bsky.social

Announcing the 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution

The Simons Foundation and Simons Foundation International have named six scientists as 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution. The two-year awards are intend...

www.simonsfoundation.org

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Daniel Petras @daniel-petras.bsky.social · Jul 3

Super excited that I’ve been selected as a Simons Early Career Investigator in Aquatic Microbial Ecology and Evolution. We will explore how marine microbes shape the production, transformation, and fate of dissolved organic matter.
Thanks so much @simonsfoundation.org
We can’t wait to get started!

Simons Foundation @simonsfoundation.org · Jul 3

Congratulations to our six new 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution! See full list: www.simonsfoundation.org/2025/07/01/a... #science @systemsecology.bsky.social @daniel-petras.bsky.social @kendraturkkubo.bsky.social

Announcing the 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution

The Simons Foundation and Simons Foundation International have named six scientists as 2025 Simons Early Career Investigators in Aquatic Microbial Ecology and Evolution. The two-year awards are intend...

www.simonsfoundation.org

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Justin J.J. van der Hooft @jjjvanderhooft.bsky.social · Jun 23

Proud of Niek de Jonge who did a fantastic job in presenting his work on cross-ion mode spectral similarity scoring! 😎 👏
Work with Florian Huber @me-datapoint.bsky.social

#metabolomics #CompMetabolomics #MetSoc25 #MS2DeepScore

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Justin J.J. van der Hooft @jjjvanderhooft.bsky.social · Jun 23

#metabolomics #aroundtheglobe #community #teamwork 😎 together in #Prague #MetSoc25

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Justin J.J. van der Hooft @jjjvanderhooft.bsky.social · Jun 24

Proud of @elenadelpup.bsky.social who presented her work on #plant paired omics mining for biosynthesis pathway discovery! 😎👏 She presented #plantiSMASH and a MEANtools case study combining #transcriptomics & #metabolomics data.
Work with @marnixmedema.bsky.social
#CompMetabolomics #MetSoc25 #Prague

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