Bárbara Zita Peters Couto
@barbarazpc.bsky.social
phd student @saezlab.bsky.social 💻 ✨
trying to reduce pain in this world by studying diseases + drugs 💊
also super interested in figuring out how to prevent misinformation in society 🔑
trying to reduce pain in this world by studying diseases + drugs 💊
also super interested in figuring out how to prevent misinformation in society 🔑
Reposted by Bárbara Zita Peters Couto
🥁 Check out our new preprint on OmniPath, the prior knowledge resource for #SystemsBiology, and its brand-new OmniPath Explorer web app! 🥳
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
September 17, 2025 at 1:10 PM
🥁 Check out our new preprint on OmniPath, the prior knowledge resource for #SystemsBiology, and its brand-new OmniPath Explorer web app! 🥳
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
📖 Preprint: www.biorxiv.org/content/10.1...
🔍 Explorer: explore.omnipathdb.org
OmniPath integrates 160+ resources for multi-omics analysis & modeling.
🧶⬇️
Reposted by Bárbara Zita Peters Couto
👀 we are involved in projects 1 & 6 on the list:
1️⃣ Multicellular molecular characterisation of inflammatory bowel disease
6️⃣ Designing Efficient Single-Cell Perturbation Experiments with Lab-in-the-Loop AI Agents
📅 Application deadline is 30th September ❗
1️⃣ Multicellular molecular characterisation of inflammatory bowel disease
6️⃣ Designing Efficient Single-Cell Perturbation Experiments with Lab-in-the-Loop AI Agents
📅 Application deadline is 30th September ❗
Recruitment is now open for the EMBL-EBI–Sanger Postdoctoral Programme.
ESPOD builds on the collaborative relationship between EMBL-EBI and the @sangerinstitute.bsky.social, offering projects that combine experimental and computational approaches.
www.ebi.ac.uk/research/pos...
🧬🖥️🔬#postdocjob
ESPOD builds on the collaborative relationship between EMBL-EBI and the @sangerinstitute.bsky.social, offering projects that combine experimental and computational approaches.
www.ebi.ac.uk/research/pos...
🧬🖥️🔬#postdocjob
August 14, 2025 at 9:05 AM
👀 we are involved in projects 1 & 6 on the list:
1️⃣ Multicellular molecular characterisation of inflammatory bowel disease
6️⃣ Designing Efficient Single-Cell Perturbation Experiments with Lab-in-the-Loop AI Agents
📅 Application deadline is 30th September ❗
1️⃣ Multicellular molecular characterisation of inflammatory bowel disease
6️⃣ Designing Efficient Single-Cell Perturbation Experiments with Lab-in-the-Loop AI Agents
📅 Application deadline is 30th September ❗
Reposted by Bárbara Zita Peters Couto
🎉 The revised version of CORNETO, our unified Python framework for knowledge-driven network inference from omics data, is published in peer reviewed form
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇
July 22, 2025 at 3:23 PM
🎉 The revised version of CORNETO, our unified Python framework for knowledge-driven network inference from omics data, is published in peer reviewed form
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇
🔗 Paper: www.nature.com/articles/s42...
📖 News & Views: www.nature.com/articles/s42...
💻 Code: corneto.org
🧵 Thread 👇
Reposted by Bárbara Zita Peters Couto
🔧 decoupler 2.0.6 is out thanks to @paubadiam.bsky.social, now as a core @scverse.bsky.social package scverse.org
This release includes a streamlined API aligned with scverse standards, updated vignettes, and a new one on pseudotime enrichment analysis 👇
decoupler.readthedocs.io/en/latest/
This release includes a streamlined API aligned with scverse standards, updated vignettes, and a new one on pseudotime enrichment analysis 👇
decoupler.readthedocs.io/en/latest/
June 12, 2025 at 6:36 AM
🔧 decoupler 2.0.6 is out thanks to @paubadiam.bsky.social, now as a core @scverse.bsky.social package scverse.org
This release includes a streamlined API aligned with scverse standards, updated vignettes, and a new one on pseudotime enrichment analysis 👇
decoupler.readthedocs.io/en/latest/
This release includes a streamlined API aligned with scverse standards, updated vignettes, and a new one on pseudotime enrichment analysis 👇
decoupler.readthedocs.io/en/latest/
Reposted by Bárbara Zita Peters Couto
In this Voices article, our @martingarridorc.bsky.social & @juliosaezrod.bsky.social discuss key strategies for building context-specific molecular networks: knowledge and data-driven methods, + future directions in the field bridging to structures and perturbations tinyurl.com/z8t6yych
What is the current bottleneck in mapping molecular interaction networks?
Network biologists today have access to a rich assortment of interaction networks
produced by assays such as affinity purification-mass spectrometry (AP-MS), yeast
two-hybrid (Y2H) screening, co-fract...
www.cell.com
May 30, 2025 at 6:27 AM
In this Voices article, our @martingarridorc.bsky.social & @juliosaezrod.bsky.social discuss key strategies for building context-specific molecular networks: knowledge and data-driven methods, + future directions in the field bridging to structures and perturbations tinyurl.com/z8t6yych
Reposted by Bárbara Zita Peters Couto
Ever wondered which method to use to infer kinase activities from phosphoproteomics data? 💻💭Our revised comprehensive evaluation of kinase activity inference tools, done in collaboration with the Zhang lab @bcmhouston.bsky.social, is now out @natcomms.nature.com 🔬 tinyurl.com/4twuc6z4
May 23, 2025 at 7:38 AM
Ever wondered which method to use to infer kinase activities from phosphoproteomics data? 💻💭Our revised comprehensive evaluation of kinase activity inference tools, done in collaboration with the Zhang lab @bcmhouston.bsky.social, is now out @natcomms.nature.com 🔬 tinyurl.com/4twuc6z4
Reposted by Bárbara Zita Peters Couto
Here it is! Bonsai. Now there is really no more excuse for using t-SNE/UMAP. Bonsai not only makes cool pictures of your data. It actually rigorously preserves its structure. No tunable parameters. Incredible work by @dhdegroot.bsky.social.
I'm so excited about this!
www.biorxiv.org/content/10.1...
I'm so excited about this!
www.biorxiv.org/content/10.1...
Bonsai: Tree representations for distortion-free visualization and exploratory analysis of single-cell omics data
Single-cell omics methods promise to revolutionize our understanding of gene regulatory processes during cell differentiation, but analysis of such data continues to pose a major challenge. Apart from...
www.biorxiv.org
May 9, 2025 at 10:49 AM
Here it is! Bonsai. Now there is really no more excuse for using t-SNE/UMAP. Bonsai not only makes cool pictures of your data. It actually rigorously preserves its structure. No tunable parameters. Incredible work by @dhdegroot.bsky.social.
I'm so excited about this!
www.biorxiv.org/content/10.1...
I'm so excited about this!
www.biorxiv.org/content/10.1...
Reposted by Bárbara Zita Peters Couto
Move over mitochondria, a new organelle called the nitroplast is here.
In a Science study last year, researchers reported that a nitrogen-fixing organelle has been identified in a marine alga.
Learn more in this #SciencePerspective: scim.ag/49GjClc #ScienceMagArchives
In a Science study last year, researchers reported that a nitrogen-fixing organelle has been identified in a marine alga.
Learn more in this #SciencePerspective: scim.ag/49GjClc #ScienceMagArchives
The nitroplast: A nitrogen-fixing organelle
A bacterial endosymbiont of marine algae evolved to an organelle
scim.ag
April 29, 2025 at 5:48 PM
Move over mitochondria, a new organelle called the nitroplast is here.
In a Science study last year, researchers reported that a nitrogen-fixing organelle has been identified in a marine alga.
Learn more in this #SciencePerspective: scim.ag/49GjClc #ScienceMagArchives
In a Science study last year, researchers reported that a nitrogen-fixing organelle has been identified in a marine alga.
Learn more in this #SciencePerspective: scim.ag/49GjClc #ScienceMagArchives
Reposted by Bárbara Zita Peters Couto
MCML Blog: 🚨 Hate speech spreads fast — and it’s not just about detecting hate or profiling its authors. Who reshares it?
Dominique Geissler, Abdurahman Maarouf & PI Stefan Feuerriegel analyzed the profiles of hate speech spreaders on social media. 🔍
📄 Read more: mcml.ai/news/2025-04...
Dominique Geissler, Abdurahman Maarouf & PI Stefan Feuerriegel analyzed the profiles of hate speech spreaders on social media. 🔍
📄 Read more: mcml.ai/news/2025-04...
April 30, 2025 at 8:50 AM
MCML Blog: 🚨 Hate speech spreads fast — and it’s not just about detecting hate or profiling its authors. Who reshares it?
Dominique Geissler, Abdurahman Maarouf & PI Stefan Feuerriegel analyzed the profiles of hate speech spreaders on social media. 🔍
📄 Read more: mcml.ai/news/2025-04...
Dominique Geissler, Abdurahman Maarouf & PI Stefan Feuerriegel analyzed the profiles of hate speech spreaders on social media. 🔍
📄 Read more: mcml.ai/news/2025-04...
Reposted by Bárbara Zita Peters Couto
Wrapping up in beautiful Ascona ☀️ for the Modern Benchmark Conference sites.google.com/view/ascona2.... Great to see the community discussing a field that’s essential yet often overlooked and challenging @smuellerdott.bsky.social @barbarazpc.bsky.social @ivanovaos.bsky.social @paubadiam.bsky.social
March 27, 2025 at 9:11 AM
Wrapping up in beautiful Ascona ☀️ for the Modern Benchmark Conference sites.google.com/view/ascona2.... Great to see the community discussing a field that’s essential yet often overlooked and challenging @smuellerdott.bsky.social @barbarazpc.bsky.social @ivanovaos.bsky.social @paubadiam.bsky.social
Reposted by Bárbara Zita Peters Couto
🇺🇦💙🇬🇧 Standing with Ukraine—enhancing OSINT for a safer future!
Since day one, OSINT Industries has supported Ukrainian law enforcement with free access. Recently, EUAM Ukraine led a 4-day OSINT training at ХНУВС in Vinnytsia, equipping officers with advanced skills.
Proud to support this mission!
Since day one, OSINT Industries has supported Ukrainian law enforcement with free access. Recently, EUAM Ukraine led a 4-day OSINT training at ХНУВС in Vinnytsia, equipping officers with advanced skills.
Proud to support this mission!
February 25, 2025 at 6:28 AM
🇺🇦💙🇬🇧 Standing with Ukraine—enhancing OSINT for a safer future!
Since day one, OSINT Industries has supported Ukrainian law enforcement with free access. Recently, EUAM Ukraine led a 4-day OSINT training at ХНУВС in Vinnytsia, equipping officers with advanced skills.
Proud to support this mission!
Since day one, OSINT Industries has supported Ukrainian law enforcement with free access. Recently, EUAM Ukraine led a 4-day OSINT training at ХНУВС in Vinnytsia, equipping officers with advanced skills.
Proud to support this mission!
Vevo therapeutics released their 100M perturbed single cell atlas!
- git repo: github.com/ArcInstitute...
- press release: www.prnewswire.com/news-release...
- git repo: github.com/ArcInstitute...
- press release: www.prnewswire.com/news-release...
Vevo Therapeutics Open Sources Tahoe-100M, the World's Largest Single-Cell Dataset, as the Inaugural Contribution to Arc Institute's New Virtual Cell Atlas
/PRNewswire/ -- In a landmark move to advance AI-driven biological research, Arc Institute and Vevo Therapeutics announced today that they have partnered on...
www.prnewswire.com
February 26, 2025 at 9:04 AM
Vevo therapeutics released their 100M perturbed single cell atlas!
- git repo: github.com/ArcInstitute...
- press release: www.prnewswire.com/news-release...
- git repo: github.com/ArcInstitute...
- press release: www.prnewswire.com/news-release...