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Rita Martins-Silva

@ritamtbs.bsky.social
44 followers 28 following 3 posts

🤔🤔 | PhD student / Computational Biologist 👩🏼‍💻 Disease Transcriptomics Lab @ Gulbenkian Institute for Molecular Medicine (GIMM)

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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 07/08/2026
Garbage In, Plot Out 🧠 A bioinformatics pipeline will always give you something: a plot, a p-value, a cluster. It won’t tell you whether the parameters you chose were the right ones. That’s the black box problem in bioinformatics 📊. A thread on why critical thinking matters 🧵
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 24/07/2026
🚀 Our new research lab website is now live! After a few months of moving, settling in, and rebuilding, the Disease Transcriptomics Lab is now online: diseasetranscriptomicslab.github.io Find out more about our research, tools, people, ethos, and opportunities to join us.
diseasetranscriptomicslab.github.io
Disease Transcriptomics Lab · NMorais Lab
Decoding transcriptomes to understand disease. Computational biology research at NOVA Medical School, Lisbon.
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 08/06/2026
Finally out, a much improved peer-reviewed article published in NAR Genomics & Bioinformatics @academic.oup.com. 👏 @ritamtbs.bsky.social and @a-kaizeler.bsky.social! academic.oup.com/nargab/artic...
academic.oup.com
Exploring molecular signatures of senescence with marker, an R Toolkit for evaluating gene sets as phenotypic markers
Abstract. Many biological processes, including cellular senescence, manifest as diverse phenotypes across cell types and conditions. Lacking definitive mar
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 28/03/2026
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 28/03/2026
The Lab was well represented at the Bioinformatics Open Days @uminho.bsky.social (25-27 March), with Nuno giving a keynote lecture and @a-kaizeler.bsky.social, Francisca, and @ritamtbs.bsky.social presenting posters.
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 11/02/2026
Happy International Day of Women and Girls in Science! 👩‍🔬
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 06/02/2026
On World Cancer Day, Francisca's PhD project was awarded an Oncology Research Grant by the Portuguese League Against Cancer (Southern Regional Center) and the Benfica Foundation, to support her work on testing predictive biomarkers of therapeutic response in rectal cancer. 🙏🦀⚕️💪
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 30/01/2026
We are proud of the Lab's participation in the CAML & GIMM PhD Meeting this week: @a-kaizeler.bsky.social, @ritamtbs.bsky.social and Francisca eloquently presented their work to their colleagues 👏. @ritamtbs.bsky.social won the award for Best Poster Presentation by a 4th year PhD student! 🥇
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 11/12/2025
Following the @bioconductor.bsky.social package, the @biorxivpreprint.bsky.social preprint: "Exploring molecular signatures of senescence with markeR, an R toolkit for evaluating gene sets as phenotypic markers". 💻🧬📰 👏 @ritamtbs.bsky.social 💪 www.biorxiv.org/content/10.6...
biorxiv.org
Exploring molecular signatures of senescence with markeR, an R toolkit for evaluating gene sets as phenotypic markers
Many biological processes, including cellular senescence, manifest as diverse phenotypes that vary across cell types and conditions. In the absence of single, definitive markers, researchers often rel...
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Reposted by Rita Martins-Silva
bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 09/12/2025
Exploring molecular signatures of senescence with markeR, an R toolkit for evaluating gene sets as phenotypic markers www.biorxiv.org/content/10.64898/20…
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 18/11/2025
Do you want to know more on what the PhD with us is about? 🙂 We are still looking for the perfect candidate! 🔎 Please spread the word! 🙏
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Rita Martins-Silva @ritamtbs.bsky.social · 13/10/2025
🚀 Exciting news: markeR is now available in the Bioconductor development version and will be part of the new release 3.22, scheduled for October 29! 🎉 Give it a try and let us know what you think! 🔗 bioconductor.org/packages/dev...
bioconductor.org
markeR (development version)
markeR is an R package that provides a modular and extensible framework for the systematic evaluation of gene sets as phenotypic markers using transcriptomic data. The package is designed to support b...
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Rita Martins-Silva @ritamtbs.bsky.social · 04/07/2025
We’re wrapping up the development of markeR, an 📦 R package to quantify phenotypes from gene sets. Working with RNA-seq and trying to quantify things like senescence or inflammation? Give it a spin and share feedback! Install & tutorials: github.com/DiseaseTrans... 📄 Paper coming soon... Stay tuned!
markeR provides a suite of methods for using gene sets to quantify and evaluate the extent to which a given gene signature marks a specific phenotype from gene expression data. The package implements various scoring and enrichment approaches, along with tools to compute performance metrics and visualize results.
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Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 20/06/2025
Kudos to Daniel for the outstanding development of an approach to identify actigraphy-based markers of split shift work in submariners in a smooth interdisciplinary collaboration with Cátia Reis @gimmfoundation.bsky.social . ☀️🌒💪 Feedback is most welcome! 🙂 www.biorxiv.org/content/10.1...
biorxiv.org
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Reposted by Rita Martins-Silva
BIOMICS_GIMM @biomics-twinning.bsky.social · 22/05/2025
🎉 BIOMICS just went socialite — next stop: science influencer status 😎🧬 Follow us, share us, love us (for science, of course). 📢 We’re everywhere: X: @BiomicsTwinning YouTube: @BIOMICSTwinning LinkedIn: biomics-twinning Bluesky: biomics-twinning.bsky.social #BIOMICS #TwinningProject #SciComm
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 30/12/2024
We are delighted to lead @ec.europa.eu-funded BIOMICS (coordinated by Nuno and managed by @dianavieira.bsky.social) and partner with @embl.org (as well as @crg.eu and @ethzurich.bsky.social) in advancing biomedical data science and fostering critical thinking. Stay tuned: official launch in January!
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Reposted by Rita Martins-Silva
Disease Transcriptomics (NMorais) Lab @nmoraislab.bsky.social · 28/11/2024
We kick off our activity in Bluesky expressing our pride of Francisca and Jacek (@jacolm.bsky.social) for an excellent job yesterday, explaining machine learning approaches for biomarker discovery to oncobiologists at GIMM. 👏
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