Andrea Petretto
@angrist.bsky.social
Head of the Core Facility for Omics Sciences at IRCCS Ist. G. Gaslini - Pediatric Hospital, interested in mass spectrometry applied to life sciences. Opinions are my own.
Reposted by Andrea Petretto
MetaXtract: Extracting Metadata from Raw Files for FAIR Data Practices and Workflow Optimisation www.biorxiv.org/cont...
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#proteomics #prot-preprint
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#proteomics #prot-preprint
November 13, 2025 at 7:20 PM
MetaXtract: Extracting Metadata from Raw Files for FAIR Data Practices and Workflow Optimisation www.biorxiv.org/cont...
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#proteomics #prot-preprint
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#proteomics #prot-preprint
Reposted by Andrea Petretto
Current efforts focus on predicting transcriptional responses to gene silencing.
Even if spectacularly successful, they leave open key questions:
◾️Functions of genetic mutations & polymorphisms
◾️Proteoform functions
◾️Protein abundance regulation
Biology is complex.
Even if spectacularly successful, they leave open key questions:
◾️Functions of genetic mutations & polymorphisms
◾️Proteoform functions
◾️Protein abundance regulation
Biology is complex.
November 13, 2025 at 3:39 PM
Current efforts focus on predicting transcriptional responses to gene silencing.
Even if spectacularly successful, they leave open key questions:
◾️Functions of genetic mutations & polymorphisms
◾️Proteoform functions
◾️Protein abundance regulation
Biology is complex.
Even if spectacularly successful, they leave open key questions:
◾️Functions of genetic mutations & polymorphisms
◾️Proteoform functions
◾️Protein abundance regulation
Biology is complex.
Reposted by Andrea Petretto
Can we all agree to write all the grants in the first semester so we can do other things during the second semester?
November 14, 2025 at 7:31 AM
Can we all agree to write all the grants in the first semester so we can do other things during the second semester?
thanks! but for the heat? This, for me, is a huge problem..
November 7, 2025 at 6:36 AM
thanks! but for the heat? This, for me, is a huge problem..
Reposted by Andrea Petretto
This is the typical solution for noise. Otherwise, you can put the pumps behind a wall.
Noise reduction box for your vacuum pump share.google/INWVOMRy4bH9...
Noise reduction box for your vacuum pump share.google/INWVOMRy4bH9...
Noise reduction box for your vacuum pump
The soundproofing is optimal with a significant 75% reduction in noise perception.The interior part of our noise reduction boxes has open cells construction that delivers an incredible noise absorptio...
share.google
November 6, 2025 at 11:21 PM
This is the typical solution for noise. Otherwise, you can put the pumps behind a wall.
Noise reduction box for your vacuum pump share.google/INWVOMRy4bH9...
Noise reduction box for your vacuum pump share.google/INWVOMRy4bH9...
We're planning the new labs at my institute. I'd be interested in anyone's suggestions on how to manage noise and heat from the pumps :)
Fun day out at Waters charge detection mass spectrometry (CD-MS) technology day.
November 6, 2025 at 10:51 PM
We're planning the new labs at my institute. I'd be interested in anyone's suggestions on how to manage noise and heat from the pumps :)
Reposted by Andrea Petretto
Pretty cool update from GlycoScape:
Sugar-specific visualisation, based on the sugar type. Should help for hypothesis generation since you can plot each sugar type and compare.
Sugar-specific visualisation, based on the sugar type. Should help for hypothesis generation since you can plot each sugar type and compare.
September 25, 2025 at 5:21 AM
Pretty cool update from GlycoScape:
Sugar-specific visualisation, based on the sugar type. Should help for hypothesis generation since you can plot each sugar type and compare.
Sugar-specific visualisation, based on the sugar type. Should help for hypothesis generation since you can plot each sugar type and compare.
Reposted by Andrea Petretto
Out in @cp-cellsystems.bsky.social: Deep Visual Proteomics shows xenotransplantation drives colon #organoids toward in-vivo-like proteomes supporting their use in regenerative medicine; culture tweaks can mimic this shift. With @kimbakjensen.bsky.social. Lead author Frederik Post explains below:
September 10, 2025 at 3:16 PM
Out in @cp-cellsystems.bsky.social: Deep Visual Proteomics shows xenotransplantation drives colon #organoids toward in-vivo-like proteomes supporting their use in regenerative medicine; culture tweaks can mimic this shift. With @kimbakjensen.bsky.social. Lead author Frederik Post explains below:
Reposted by Andrea Petretto
I want to start a new global movement:
Meetless Monday - we encourages people to reduce their meeting activity by one day each week for personal health and the planet's well-being.
Meetless Monday - we encourages people to reduce their meeting activity by one day each week for personal health and the planet's well-being.
September 10, 2025 at 6:09 AM
I want to start a new global movement:
Meetless Monday - we encourages people to reduce their meeting activity by one day each week for personal health and the planet's well-being.
Meetless Monday - we encourages people to reduce their meeting activity by one day each week for personal health and the planet's well-being.
Reposted by Andrea Petretto
News in Proteomics Research blog post | Mass spectrometry proteomics - From single cells through new(!) clinical applications! proteomicsnews.blogs...
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#proteomics #prot-other
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#proteomics #prot-other
September 7, 2025 at 10:00 AM
News in Proteomics Research blog post | Mass spectrometry proteomics - From single cells through new(!) clinical applications! proteomicsnews.blogs...
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#proteomics #prot-other
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#proteomics #prot-other
Reposted by Andrea Petretto
Scalable Acid-Aided Lysis of Skin Samples Improves Proteome Coverage www.sciencedirect.co...
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#proteomics #prot-paper
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#proteomics #prot-paper
September 7, 2025 at 9:20 AM
Scalable Acid-Aided Lysis of Skin Samples Improves Proteome Coverage www.sciencedirect.co...
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#proteomics #prot-paper
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#proteomics #prot-paper
Reposted by Andrea Petretto
(ABioanChem) Computational mass spectrometry for exposomics in non‑target screening #MassSpecRSS
Computational mass spectrometry for exposomics in non‑target screening - Analytical and Bioanalytical Chemistry
dlvr.it
September 7, 2025 at 12:02 AM
(ABioanChem) Computational mass spectrometry for exposomics in non‑target screening #MassSpecRSS
Reposted by Andrea Petretto
(Proteomics) QuickProt: A Bioinformatics and Visualization Tool for DIA and PRM Mass Spectrometry‐Based Proteomics Datasets: PROTEOMICS, EarlyView. #MassSpecRSS
QuickProt: A Bioinformatics and Visualization Tool for DIA and PRM Mass Spectrometry‐Based Proteomics Datasets
PROTEOMICS, EarlyView.
dlvr.it
September 5, 2025 at 2:58 PM
(Proteomics) QuickProt: A Bioinformatics and Visualization Tool for DIA and PRM Mass Spectrometry‐Based Proteomics Datasets: PROTEOMICS, EarlyView. #MassSpecRSS
Reposted by Andrea Petretto
Lutefisk - de novo MS/MS Sequencing
de novo peptide MS/MS analysis tool
hairyfatguy.com
September 5, 2025 at 4:13 PM
Reposted by Andrea Petretto
📢 Happy to announce that Ensembl 115 and Ensembl Genomes 62 are out! This release features ~120000 new protein coding transcripts in human GRCh38, 2 new cattle, 7 new plants and 20 new metazoa! 🧬🐮 🫛🪲
Read more here ➡️ zurl.co/poyXM
Read more here ➡️ zurl.co/poyXM
Ensembl 115 has been released! – Ensembl Blog
zurl.co
September 2, 2025 at 7:54 PM
📢 Happy to announce that Ensembl 115 and Ensembl Genomes 62 are out! This release features ~120000 new protein coding transcripts in human GRCh38, 2 new cattle, 7 new plants and 20 new metazoa! 🧬🐮 🫛🪲
Read more here ➡️ zurl.co/poyXM
Read more here ➡️ zurl.co/poyXM
Reposted by Andrea Petretto
This provocative article does not mince words.
The authors argue that genome sequencing and scRNA-seq yield findings challenging the notion that cancer is a ‘genetic disease’:
"... the cancer research community has abandoned deep thinking for deep sequencing"
1/n
The authors argue that genome sequencing and scRNA-seq yield findings challenging the notion that cancer is a ‘genetic disease’:
"... the cancer research community has abandoned deep thinking for deep sequencing"
1/n
September 3, 2025 at 11:03 AM
This provocative article does not mince words.
The authors argue that genome sequencing and scRNA-seq yield findings challenging the notion that cancer is a ‘genetic disease’:
"... the cancer research community has abandoned deep thinking for deep sequencing"
1/n
The authors argue that genome sequencing and scRNA-seq yield findings challenging the notion that cancer is a ‘genetic disease’:
"... the cancer research community has abandoned deep thinking for deep sequencing"
1/n
Reposted by Andrea Petretto
Liquid Chromatographic and Mass Spectrometric Methods for Quantitative Proteomic Analysis from Single-Cell and Nanogram-Level Samples pubs.acs.org/doi/10....
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#proteomics #prot-paper
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#proteomics #prot-paper
September 2, 2025 at 2:20 PM
Liquid Chromatographic and Mass Spectrometric Methods for Quantitative Proteomic Analysis from Single-Cell and Nanogram-Level Samples pubs.acs.org/doi/10....
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#proteomics #prot-paper
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#proteomics #prot-paper
Reposted by Andrea Petretto
Nice to see our SUGA approach on PanoramaWeb. It hosts our raw files and Skyline assays, to improve data analysis reproducibility.
Quick and easy N-glycomics, suitable for those trying out glycan analysis without spending extra $ on anything except PNGase-F!
Paper: pubmed.ncbi.nlm.nih.gov/39978775/
Quick and easy N-glycomics, suitable for those trying out glycan analysis without spending extra $ on anything except PNGase-F!
Paper: pubmed.ncbi.nlm.nih.gov/39978775/
September 2, 2025 at 1:11 PM
Nice to see our SUGA approach on PanoramaWeb. It hosts our raw files and Skyline assays, to improve data analysis reproducibility.
Quick and easy N-glycomics, suitable for those trying out glycan analysis without spending extra $ on anything except PNGase-F!
Paper: pubmed.ncbi.nlm.nih.gov/39978775/
Quick and easy N-glycomics, suitable for those trying out glycan analysis without spending extra $ on anything except PNGase-F!
Paper: pubmed.ncbi.nlm.nih.gov/39978775/
Reposted by Andrea Petretto
If you are interested in scientific software engineering or experimental work in the fields of spatial and multi-modal -omics, high throughput interaction proteomics, or mass instrumentation, apply until Oct 7th! @mannlab.bsky.social
www.biochem.mpg.de/mann
imprs-ml.mpg.de/How-to-Apply
www.biochem.mpg.de/mann
imprs-ml.mpg.de/How-to-Apply
How to Apply
Learn more about our application process
imprs-ml.mpg.de
September 1, 2025 at 12:09 PM
If you are interested in scientific software engineering or experimental work in the fields of spatial and multi-modal -omics, high throughput interaction proteomics, or mass instrumentation, apply until Oct 7th! @mannlab.bsky.social
www.biochem.mpg.de/mann
imprs-ml.mpg.de/How-to-Apply
www.biochem.mpg.de/mann
imprs-ml.mpg.de/How-to-Apply
Reposted by Andrea Petretto
Metagenomics and metabolomics to evaluate the potential role of gut microbiota and blood metabolites in patients with cerebral infarction #BMCMicrobiol #MassSpec bmcmicrobiol.biomedcentral.com/articles/10....
Metagenomics and metabolomics to evaluate the potential role of gut microbiota and blood metabolites in patients with cerebral infarction - BMC Microbiology
Cerebral infarction, a cerebrovascular disorder, is characterized by the sudden onset of neurological deficits and clinical symptoms. It ranks among the leading causes of death and severe disability w...
bmcmicrobiol.biomedcentral.com
August 31, 2025 at 6:17 PM
Metagenomics and metabolomics to evaluate the potential role of gut microbiota and blood metabolites in patients with cerebral infarction #BMCMicrobiol #MassSpec bmcmicrobiol.biomedcentral.com/articles/10....
Reposted by Andrea Petretto
Knowledge and data-driven two-layer networking for accurate metabolite annotation in untargeted metabolomics #nature #MassSpecRSS
Knowledge and data-driven two-layer networking for accurate metabolite annotation in untargeted metabolomics - Nature Communications
Accurate metabolite annotation remains a major challenge in untargeted metabolomics. Here, the authors present MetDNA3, a framework that integrates knowledge and data-driven two-layer networking to improve both the accuracy and coverage of known metabolite annotation, while also enabling the discovery of uncharacterized metabolites.
dlvr.it
August 31, 2025 at 2:08 AM
Knowledge and data-driven two-layer networking for accurate metabolite annotation in untargeted metabolomics #nature #MassSpecRSS
Reposted by Andrea Petretto
(JASMS) [ASAP] Simulating Collision-Induced Dissociation Tandem Mass Spectrometry (CID-MS/MS) for the Blood Exposome Database Using Quantum Chemistry Methods - A Pilot Study: Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00179 (RSS) #MassSpecRSS #JASMS
[ASAP] Simulating Collision-Induced Dissociation Tandem Mass Spectrometry (CID-MS/MS) for the Blood Exposome Database Using Quantum Chemistry Methods - A Pilot Study
Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00179
dlvr.it
August 29, 2025 at 6:15 PM
(JASMS) [ASAP] Simulating Collision-Induced Dissociation Tandem Mass Spectrometry (CID-MS/MS) for the Blood Exposome Database Using Quantum Chemistry Methods - A Pilot Study: Journal of the American Society for Mass SpectrometryDOI: 10.1021/jasms.5c00179 (RSS) #MassSpecRSS #JASMS
Reposted by Andrea Petretto
(ACS Anal Chem) [ASAP] A Chromatography-Guided Co-Fractionation Mass Spectrometry Strategy for Rapid Profiling of Drug-Perturbed Protein Complexes: Analytical ChemistryDOI: 10.1021/acs.analchem.5c02702 #MassSpecRSS #ACSAChem
[ASAP] A Chromatography-Guided Co-Fractionation Mass Spectrometry Strategy for Rapid Profiling of Drug-Perturbed Protein Complexes
Analytical ChemistryDOI: 10.1021/acs.analchem.5c02702
dlvr.it
August 29, 2025 at 5:02 PM
(ACS Anal Chem) [ASAP] A Chromatography-Guided Co-Fractionation Mass Spectrometry Strategy for Rapid Profiling of Drug-Perturbed Protein Complexes: Analytical ChemistryDOI: 10.1021/acs.analchem.5c02702 #MassSpecRSS #ACSAChem
Reposted by Andrea Petretto
Spatial proteomics & transcriptomics chart #ovariancancer evolution from fallopian tube precursors. Deep Visual Proteomics reveals early SUMOylation, TRIP13 epithelial driver, BGN therapeutic target & epithelial-stromal cooperation in progression.
www.medrxiv.org/content/10.1...
www.medrxiv.org/content/10.1...
Integration of cell-type resolved spatial proteomics and transcriptomics reveals novel mechanisms in early ovarian cancer
High-grade serous carcinoma (HGSC) is the most common ovarian cancer subtype, typically diagnosed at late stages with poor prognosis. Understanding early molecular events driving HGSC progression is c...
www.medrxiv.org
August 29, 2025 at 8:48 AM
Spatial proteomics & transcriptomics chart #ovariancancer evolution from fallopian tube precursors. Deep Visual Proteomics reveals early SUMOylation, TRIP13 epithelial driver, BGN therapeutic target & epithelial-stromal cooperation in progression.
www.medrxiv.org/content/10.1...
www.medrxiv.org/content/10.1...
Reposted by Andrea Petretto
