Reposted by Anaïs Baudot
🚀 That’s a wrap on ERDERA’s 2nd General Assembly! Three inspiring days of scientific exchange, strategy & collaboration — advancing research & innovation in the rare disease ecosystem. Huge thanks to Amsterdam UMC for hosting and to all partners for their energy & commitment! 💡 #ERDERA
October 31, 2025 at 3:18 PM
🚀 That’s a wrap on ERDERA’s 2nd General Assembly! Three inspiring days of scientific exchange, strategy & collaboration — advancing research & innovation in the rare disease ecosystem. Huge thanks to Amsterdam UMC for hosting and to all partners for their energy & commitment! 💡 #ERDERA
Reposted by Anaïs Baudot
"Supercomputación para desarrollar fármacos y predecir enfermedades" en Cinco Días.
💻🧬El BSC intenta resolver algunos de los grandes desafíos médicos. Su departamento de Ciencias de la Vida trabaja en #cáncer, patologías raras, nuevos fármacos o análisis genómico.
💻🧬El BSC intenta resolver algunos de los grandes desafíos médicos. Su departamento de Ciencias de la Vida trabaja en #cáncer, patologías raras, nuevos fármacos o análisis genómico.
October 17, 2025 at 10:28 AM
"Supercomputación para desarrollar fármacos y predecir enfermedades" en Cinco Días.
💻🧬El BSC intenta resolver algunos de los grandes desafíos médicos. Su departamento de Ciencias de la Vida trabaja en #cáncer, patologías raras, nuevos fármacos o análisis genómico.
💻🧬El BSC intenta resolver algunos de los grandes desafíos médicos. Su departamento de Ciencias de la Vida trabaja en #cáncer, patologías raras, nuevos fármacos o análisis genómico.
Reposted by Anaïs Baudot
RECOMB 2026 website is up! RECOMB will be in Greece :). recomb.org/recomb2026/ --- no paper deadline yet though...
RECOMB 2026 | HOME
RECOMB 2026 - Thessaloniki, Greece
recomb.org
September 24, 2025 at 3:15 PM
RECOMB 2026 website is up! RECOMB will be in Greece :). recomb.org/recomb2026/ --- no paper deadline yet though...
Reposted by Anaïs Baudot
This work was motivated by settings with scarce data such as rare diseases.
It turned into multi-dimensional puzzles and alignement problems that we really enjoyed solving! Congrats to Daniel Lepe-Soltero, the postdoc who led this work.
Link -> arxiv.org/abs/2503.18856
It turned into multi-dimensional puzzles and alignement problems that we really enjoyed solving! Congrats to Daniel Lepe-Soltero, the postdoc who led this work.
Link -> arxiv.org/abs/2503.18856
MODIS: Multi-Omics Data Integration for Small and unpaired datasets
An important objective in computational biology is the efficient integration of multi-omics data. The task of integration comes with challenges: multi-omics data are most often unpaired (requiring dia...
arxiv.org
September 16, 2025 at 10:35 AM
This work was motivated by settings with scarce data such as rare diseases.
It turned into multi-dimensional puzzles and alignement problems that we really enjoyed solving! Congrats to Daniel Lepe-Soltero, the postdoc who led this work.
Link -> arxiv.org/abs/2503.18856
It turned into multi-dimensional puzzles and alignement problems that we really enjoyed solving! Congrats to Daniel Lepe-Soltero, the postdoc who led this work.
Link -> arxiv.org/abs/2503.18856
Reposted by Anaïs Baudot
Very happy to share MODIS - a new Multi-Omics Data Integration method for Small and unpaired datasets!
We solve a long-standing problem in the field: how to perform data integration for small unpaired datasets
Our solution: learning with class imbalance on both reference and target datasets!
We solve a long-standing problem in the field: how to perform data integration for small unpaired datasets
Our solution: learning with class imbalance on both reference and target datasets!
September 16, 2025 at 10:35 AM
Very happy to share MODIS - a new Multi-Omics Data Integration method for Small and unpaired datasets!
We solve a long-standing problem in the field: how to perform data integration for small unpaired datasets
Our solution: learning with class imbalance on both reference and target datasets!
We solve a long-standing problem in the field: how to perform data integration for small unpaired datasets
Our solution: learning with class imbalance on both reference and target datasets!
Reposted by Anaïs Baudot
Link to the preprint ->
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
jsPCA: fast, scalable, and interpretable identification of spatial domains and variable genes across multi-slice and multi-sample spatial transcriptomics data
Spatially structured cell heterogeneity within tissues is essential for healthy organ function. This heterogeneity is reflected by differential gene expression activity at various spatial location. Sp...
www.biorxiv.org
September 19, 2025 at 6:51 AM
Link to the preprint ->
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Anaïs Baudot
Very happy to introduce jsPCA, a fast and interpretable computational framework for spatial transcriptomics that simultaneously identifies spatial domains and variable genes across multi-slice and multi-sample data.
September 19, 2025 at 6:50 AM
Very happy to introduce jsPCA, a fast and interpretable computational framework for spatial transcriptomics that simultaneously identifies spatial domains and variable genes across multi-slice and multi-sample data.
Excited to share David Hirst's PhD work!
🧬 When you only have a few datasets available for multi-omics integration, for instance because you work on rare diseases, one solution is Transfer Learning. Introducing #MOTL - now available in Genome Biology!
doi.org/10.1186/s130...
🧬 When you only have a few datasets available for multi-omics integration, for instance because you work on rare diseases, one solution is Transfer Learning. Introducing #MOTL - now available in Genome Biology!
doi.org/10.1186/s130...
MOTL: enhancing multi-omics matrix factorization with transfer learning - Genome Biology
Joint matrix factorization is popular for extracting lower dimensional representations of multi-omics data but loses effectiveness with limited samples. Addressing this limitation, we introduce MOTL (...
link.springer.com
July 26, 2025 at 10:15 AM
Excited to share David Hirst's PhD work!
🧬 When you only have a few datasets available for multi-omics integration, for instance because you work on rare diseases, one solution is Transfer Learning. Introducing #MOTL - now available in Genome Biology!
doi.org/10.1186/s130...
🧬 When you only have a few datasets available for multi-omics integration, for instance because you work on rare diseases, one solution is Transfer Learning. Introducing #MOTL - now available in Genome Biology!
doi.org/10.1186/s130...
Reposted by Anaïs Baudot
🚨 We're hiring! NCMBM @ncmbm.bsky.social is looking for 2 new group leaders to join our vibrant research community. Ready to build your own group with strong support and a solid startup package?
Interested and attending #ISMBECCB2025? Let’s connect!
🔗 www.jobbnorge.no/en/available...
Interested and attending #ISMBECCB2025? Let’s connect!
🔗 www.jobbnorge.no/en/available...
Group Leader (282908) | University of Oslo
Job title: Group Leader (282908), Employer: University of Oslo, Deadline: Monday, September 8, 2025
www.jobbnorge.no
July 22, 2025 at 6:12 AM
🚨 We're hiring! NCMBM @ncmbm.bsky.social is looking for 2 new group leaders to join our vibrant research community. Ready to build your own group with strong support and a solid startup package?
Interested and attending #ISMBECCB2025? Let’s connect!
🔗 www.jobbnorge.no/en/available...
Interested and attending #ISMBECCB2025? Let’s connect!
🔗 www.jobbnorge.no/en/available...
Reposted by Anaïs Baudot
👋 We wrap up our #NetBio track 2025 with announcing the #Cytoscape network visualization competition winners (woobox.com/b9poce)
Congrats:
1: Alejandra Paulina Perez Gonzalez
2. Michael Costanzo
3. Jong Chan Lim
👏👏👏 Exciting to have Alejandra and Jong in the audience and congrats to Michael!
Congrats:
1: Alejandra Paulina Perez Gonzalez
2. Michael Costanzo
3. Jong Chan Lim
👏👏👏 Exciting to have Alejandra and Jong in the audience and congrats to Michael!
NetBio Cytoscape Visualization Competition
woobox.com
July 23, 2025 at 1:33 PM
👋 We wrap up our #NetBio track 2025 with announcing the #Cytoscape network visualization competition winners (woobox.com/b9poce)
Congrats:
1: Alejandra Paulina Perez Gonzalez
2. Michael Costanzo
3. Jong Chan Lim
👏👏👏 Exciting to have Alejandra and Jong in the audience and congrats to Michael!
Congrats:
1: Alejandra Paulina Perez Gonzalez
2. Michael Costanzo
3. Jong Chan Lim
👏👏👏 Exciting to have Alejandra and Jong in the audience and congrats to Michael!
Reposted by Anaïs Baudot
🎉 And now it is time to introduce our last and shared keynote with the Microbiome COSI:
@fionabrinkman.bsky.social is talking about "Microbiome multitudes and metadata madness" connecting the #Microbiome and #NetworkBiology communities!
#ISMBECCB2025
@fionabrinkman.bsky.social is talking about "Microbiome multitudes and metadata madness" connecting the #Microbiome and #NetworkBiology communities!
#ISMBECCB2025
July 23, 2025 at 1:51 PM
🎉 And now it is time to introduce our last and shared keynote with the Microbiome COSI:
@fionabrinkman.bsky.social is talking about "Microbiome multitudes and metadata madness" connecting the #Microbiome and #NetworkBiology communities!
#ISMBECCB2025
@fionabrinkman.bsky.social is talking about "Microbiome multitudes and metadata madness" connecting the #Microbiome and #NetworkBiology communities!
#ISMBECCB2025
Reposted by Anaïs Baudot
✨ And it's already time for the last selected #NetBio talk! Piotr Sliwa is presenting "Multilayer Networks Identify Clinically Relevant Patient Endotypes in COVID-19 and Sepsis"
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
July 23, 2025 at 1:10 PM
✨ And it's already time for the last selected #NetBio talk! Piotr Sliwa is presenting "Multilayer Networks Identify Clinically Relevant Patient Endotypes in COVID-19 and Sepsis"
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
#NetBio talks are continuing in room 1B:
Dongmin Bang is presenting his proceeding paper on "MixingDTA: Improved Drug-Target Affinity Prediction by Extending Mixup with Guilt-By-Association"
doi.org/10.1093/bioi...
#ISMBECCB2025 #NetworkBiology
Dongmin Bang is presenting his proceeding paper on "MixingDTA: Improved Drug-Target Affinity Prediction by Extending Mixup with Guilt-By-Association"
doi.org/10.1093/bioi...
#ISMBECCB2025 #NetworkBiology
July 23, 2025 at 10:33 AM
#NetBio talks are continuing in room 1B:
Dongmin Bang is presenting his proceeding paper on "MixingDTA: Improved Drug-Target Affinity Prediction by Extending Mixup with Guilt-By-Association"
doi.org/10.1093/bioi...
#ISMBECCB2025 #NetworkBiology
Dongmin Bang is presenting his proceeding paper on "MixingDTA: Improved Drug-Target Affinity Prediction by Extending Mixup with Guilt-By-Association"
doi.org/10.1093/bioi...
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🔊 Nicoleta Siminea just presented her work on "Interactome-based computational solutions to support personalized drug therapy decisions in glioblastoma" at the #NetBio track at #ISMBECCB2025!
July 23, 2025 at 11:01 AM
🔊 Nicoleta Siminea just presented her work on "Interactome-based computational solutions to support personalized drug therapy decisions in glioblastoma" at the #NetBio track at #ISMBECCB2025!
Reposted by Anaïs Baudot
🎤 Next up is Terence Egbelo
He is sharing his research on "Improving Target-Adverse Event Association Prediction by Mitigating Topological Imbalance in Knowledge Graphs" with the #NetBio audience! ✨
#ISMBECCB2025 #NetworkBiology #KnowledgeGraphs
He is sharing his research on "Improving Target-Adverse Event Association Prediction by Mitigating Topological Imbalance in Knowledge Graphs" with the #NetBio audience! ✨
#ISMBECCB2025 #NetworkBiology #KnowledgeGraphs
July 23, 2025 at 11:06 AM
🎤 Next up is Terence Egbelo
He is sharing his research on "Improving Target-Adverse Event Association Prediction by Mitigating Topological Imbalance in Knowledge Graphs" with the #NetBio audience! ✨
#ISMBECCB2025 #NetworkBiology #KnowledgeGraphs
He is sharing his research on "Improving Target-Adverse Event Association Prediction by Mitigating Topological Imbalance in Knowledge Graphs" with the #NetBio audience! ✨
#ISMBECCB2025 #NetworkBiology #KnowledgeGraphs
Reposted by Anaïs Baudot
✨Johannes Kersting just presented his cool #Nextflow Pipeline for Network-Based Disease Module Identification and Drug Repurposing
nf-co.re/diseasemodul...
github.com/nf-core/dise...
#ISMBECCB2025 #NetworkBiology #NetBio
nf-co.re/diseasemodul...
github.com/nf-core/dise...
#ISMBECCB2025 #NetworkBiology #NetBio
July 23, 2025 at 11:38 AM
✨Johannes Kersting just presented his cool #Nextflow Pipeline for Network-Based Disease Module Identification and Drug Repurposing
nf-co.re/diseasemodul...
github.com/nf-core/dise...
#ISMBECCB2025 #NetworkBiology #NetBio
nf-co.re/diseasemodul...
github.com/nf-core/dise...
#ISMBECCB2025 #NetworkBiology #NetBio
Reposted by Anaïs Baudot
📣Last speaker of the #NetBio morning session:
Samuele Firmani is presenting GATE (Graph Antiviral Target Explorer) to predict disease genes in viral infections with Message Passing Neural Networks"
#ISMBECCB2025 #NetworkBiology
Samuele Firmani is presenting GATE (Graph Antiviral Target Explorer) to predict disease genes in viral infections with Message Passing Neural Networks"
#ISMBECCB2025 #NetworkBiology
July 23, 2025 at 11:51 AM
📣Last speaker of the #NetBio morning session:
Samuele Firmani is presenting GATE (Graph Antiviral Target Explorer) to predict disease genes in viral infections with Message Passing Neural Networks"
#ISMBECCB2025 #NetworkBiology
Samuele Firmani is presenting GATE (Graph Antiviral Target Explorer) to predict disease genes in viral infections with Message Passing Neural Networks"
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🎤 Next #NetBio talk:
Erik Sonnhammer presents #FunCoup6, an upgrade to the functional association network database, now with enhanced regulatory links, a redesigned interface, and powerful new tools for comparative interactomics and disease module analysis.
funcoup.org
#ISMBECCB2025 #NetworkBiology
Erik Sonnhammer presents #FunCoup6, an upgrade to the functional association network database, now with enhanced regulatory links, a redesigned interface, and powerful new tools for comparative interactomics and disease module analysis.
funcoup.org
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 2:06 PM
🎤 Next #NetBio talk:
Erik Sonnhammer presents #FunCoup6, an upgrade to the functional association network database, now with enhanced regulatory links, a redesigned interface, and powerful new tools for comparative interactomics and disease module analysis.
funcoup.org
#ISMBECCB2025 #NetworkBiology
Erik Sonnhammer presents #FunCoup6, an upgrade to the functional association network database, now with enhanced regulatory links, a redesigned interface, and powerful new tools for comparative interactomics and disease module analysis.
funcoup.org
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🔊 Next in #NetBio at #ISMBECCB2025
Dewei Hu presents:
SPACE: STRING proteins as complementary embeddings
Cross-species network embeddings meet protein function prediction, leveraging STRING across 1,300+ eukaryotes. A powerful complement to sequence embeddings!
#NetworkBiology
Dewei Hu presents:
SPACE: STRING proteins as complementary embeddings
Cross-species network embeddings meet protein function prediction, leveraging STRING across 1,300+ eukaryotes. A powerful complement to sequence embeddings!
#NetworkBiology
July 22, 2025 at 2:27 PM
🔊 Next in #NetBio at #ISMBECCB2025
Dewei Hu presents:
SPACE: STRING proteins as complementary embeddings
Cross-species network embeddings meet protein function prediction, leveraging STRING across 1,300+ eukaryotes. A powerful complement to sequence embeddings!
#NetworkBiology
Dewei Hu presents:
SPACE: STRING proteins as complementary embeddings
Cross-species network embeddings meet protein function prediction, leveraging STRING across 1,300+ eukaryotes. A powerful complement to sequence embeddings!
#NetworkBiology
Reposted by Anaïs Baudot
⌛It's already time for our last #NetBio speaker of today:
✨🔊We are excited to welcome our 2nd keynote speaker Jan Baumbach talking about "Quantum computing for network medicine-based epistatic disease mechanism mining - Fake it till you make it?" ✨
#ISMBECCB2025 #NetworkBiology
✨🔊We are excited to welcome our 2nd keynote speaker Jan Baumbach talking about "Quantum computing for network medicine-based epistatic disease mechanism mining - Fake it till you make it?" ✨
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 4:29 PM
⌛It's already time for our last #NetBio speaker of today:
✨🔊We are excited to welcome our 2nd keynote speaker Jan Baumbach talking about "Quantum computing for network medicine-based epistatic disease mechanism mining - Fake it till you make it?" ✨
#ISMBECCB2025 #NetworkBiology
✨🔊We are excited to welcome our 2nd keynote speaker Jan Baumbach talking about "Quantum computing for network medicine-based epistatic disease mechanism mining - Fake it till you make it?" ✨
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🎤 Next talk at #NetBio is by Aritra Bose from IBM Research presenting their work on "Quantum Random Walks for Biomarker Discovery in Biomolecular Networks".
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 4:05 PM
🎤 Next talk at #NetBio is by Aritra Bose from IBM Research presenting their work on "Quantum Random Walks for Biomarker Discovery in Biomolecular Networks".
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
After lots of #NetBio discussions over coffee, we are now starting the last session for today:
Lucas Gillenwater is presenting his #ISMBECCB2025 proceeding paper "GRACKLE: An interpretable matrix factorization approach for biomedical representation learning".
doi.org/10.1093/bioi...
#NetworkBiology
Lucas Gillenwater is presenting his #ISMBECCB2025 proceeding paper "GRACKLE: An interpretable matrix factorization approach for biomedical representation learning".
doi.org/10.1093/bioi...
#NetworkBiology
July 22, 2025 at 3:45 PM
After lots of #NetBio discussions over coffee, we are now starting the last session for today:
Lucas Gillenwater is presenting his #ISMBECCB2025 proceeding paper "GRACKLE: An interpretable matrix factorization approach for biomedical representation learning".
doi.org/10.1093/bioi...
#NetworkBiology
Lucas Gillenwater is presenting his #ISMBECCB2025 proceeding paper "GRACKLE: An interpretable matrix factorization approach for biomedical representation learning".
doi.org/10.1093/bioi...
#NetworkBiology
Reposted by Anaïs Baudot
🎤 Next talk at #NetBio:
@beatrizurda.bsky.social: Disentangling the genetic and non-genetic origin of disease co-occurrences
#ISMBECCB2025 #NetworkBiology
@beatrizurda.bsky.social: Disentangling the genetic and non-genetic origin of disease co-occurrences
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 2:49 PM
🎤 Next talk at #NetBio:
@beatrizurda.bsky.social: Disentangling the genetic and non-genetic origin of disease co-occurrences
#ISMBECCB2025 #NetworkBiology
@beatrizurda.bsky.social: Disentangling the genetic and non-genetic origin of disease co-occurrences
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🎙️Next #NetBio talk: Kivilcim Ozturk uncovers how mutations in intrinsically disordered regions (IDRs) disrupt protein interactions in cancer, revealing potential cellular vulnerabilities.
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 1:47 PM
🎙️Next #NetBio talk: Kivilcim Ozturk uncovers how mutations in intrinsically disordered regions (IDRs) disrupt protein interactions in cancer, revealing potential cellular vulnerabilities.
#ISMBECCB2025 #NetworkBiology
#ISMBECCB2025 #NetworkBiology
Reposted by Anaïs Baudot
🔊 Now presenting in our #NetBio track: Ibrahim Alsaggaf introduces Sup-EGsCL, a contrastive learning method using enhanced Gaussian noise augmentation to better predict gene longevity effects from protein-protein interaction networks.
github.com/ibrahimsagga...
#ISMBECCB2025 #NetworkBiology
github.com/ibrahimsagga...
#ISMBECCB2025 #NetworkBiology
July 22, 2025 at 1:31 PM
🔊 Now presenting in our #NetBio track: Ibrahim Alsaggaf introduces Sup-EGsCL, a contrastive learning method using enhanced Gaussian noise augmentation to better predict gene longevity effects from protein-protein interaction networks.
github.com/ibrahimsagga...
#ISMBECCB2025 #NetworkBiology
github.com/ibrahimsagga...
#ISMBECCB2025 #NetworkBiology