#transcriptomics — Public Fediverse posts
Live and recent posts from across the Fediverse tagged #transcriptomics, aggregated by home.social.
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https://www.europesays.com/uk/989281/ Gene-expression patterns can be used to estimate mortality risk and chronological age – Nature #Ageing #ComputationalBiologyAndBioinformatics #Health #HumanitiesAndSocialSciences #multidisciplinary #Science #Transcriptomics #UK #UnitedKingdom
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Our paper (with Julie Cartier, Johanna Lagoas, Youmna Ayadi, Adeline Fermanian and @flomass) on the use of statistical knockoffs for the differential analysis of transcriptomics data just came out, very appropriately as it nicely illustrates my point:
https://academic.oup.com/bib/article/27/3/bbag148/8687371Using simulated outcomes on real transcriptomics data, we've shown that KOs (and in particular, the KOPI approach) do retrieve important variables with better power than classical approaches (Wilcoxon, Lasso), while controlling FDR.
However, all methods perform poorly when the relationship between gene expressions and outcome is nonlinear.
On real outcomes, the method is overly conservative (having no discoveries is a surefire way of controlling your number of false discoveries), and we had to turn the false discovery rate threshold to 50% to select any gene at all.
#machineLearning #genomics #featureSelection #biomarkerDiscovery #transcriptomics
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Our paper (with Julie Cartier, Johanna Lagoas, Youmna Ayadi, Adeline Fermanian and @flomass) on the use of statistical knockoffs for the differential analysis of transcriptomics data just came out, very appropriately as it nicely illustrates my point:
https://academic.oup.com/bib/article/27/3/bbag148/8687371Using simulated outcomes on real transcriptomics data, we've shown that KOs (and in particular, the KOPI approach) do retrieve important variables with better power than classical approaches (Wilcoxon, Lasso), while controlling FDR.
However, all methods perform poorly when the relationship between gene expressions and outcome is nonlinear.
On real outcomes, the method is overly conservative (having no discoveries is a surefire way of controlling your number of false discoveries), and we had to turn the false discovery rate threshold to 50% to select any gene at all.
#machineLearning #genomics #featureSelection #biomarkerDiscovery #transcriptomics
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Our paper (with Julie Cartier, Johanna Lagoas, Youmna Ayadi, Adeline Fermanian and @flomass) on the use of statistical knockoffs for the differential analysis of transcriptomics data just came out, very appropriately as it nicely illustrates my point:
https://academic.oup.com/bib/article/27/3/bbag148/8687371Using simulated outcomes on real transcriptomics data, we've shown that KOs (and in particular, the KOPI approach) do retrieve important variables with better power than classical approaches (Wilcoxon, Lasso), while controlling FDR.
However, all methods perform poorly when the relationship between gene expressions and outcome is nonlinear.
On real outcomes, the method is overly conservative (having no discoveries is a surefire way of controlling your number of false discoveries), and we had to turn the false discovery rate threshold to 50% to select any gene at all.
#machineLearning #genomics #featureSelection #biomarkerDiscovery #transcriptomics
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Our paper (with Julie Cartier, Johanna Lagoas, Youmna Ayadi, Adeline Fermanian and @flomass) on the use of statistical knockoffs for the differential analysis of transcriptomics data just came out, very appropriately as it nicely illustrates my point:
https://academic.oup.com/bib/article/27/3/bbag148/8687371Using simulated outcomes on real transcriptomics data, we've shown that KOs (and in particular, the KOPI approach) do retrieve important variables with better power than classical approaches (Wilcoxon, Lasso), while controlling FDR.
However, all methods perform poorly when the relationship between gene expressions and outcome is nonlinear.
On real outcomes, the method is overly conservative (having no discoveries is a surefire way of controlling your number of false discoveries), and we had to turn the false discovery rate threshold to 50% to select any gene at all.
#machineLearning #genomics #featureSelection #biomarkerDiscovery #transcriptomics
-
Our paper (with Julie Cartier, Johanna Lagoas, Youmna Ayadi, Adeline Fermanian and @flomass) on the use of statistical knockoffs for the differential analysis of transcriptomics data just came out, very appropriately as it nicely illustrates my point:
https://academic.oup.com/bib/article/27/3/bbag148/8687371Using simulated outcomes on real transcriptomics data, we've shown that KOs (and in particular, the KOPI approach) do retrieve important variables with better power than classical approaches (Wilcoxon, Lasso), while controlling FDR.
However, all methods perform poorly when the relationship between gene expressions and outcome is nonlinear.
On real outcomes, the method is overly conservative (having no discoveries is a surefire way of controlling your number of false discoveries), and we had to turn the false discovery rate threshold to 50% to select any gene at all.
#machineLearning #genomics #featureSelection #biomarkerDiscovery #transcriptomics
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Curious about the dark side of plant biology?
Check out our latest preprint on the secrets of black pigmentation in Rubus:
https://doi.org/10.64898/2026.05.05.723051
#Anthocyanins #Transcriptomics #PlantScience #Fruits
@PuckerLab -
Curious about the dark side of plant biology?
Check out our latest preprint on the secrets of black pigmentation in Rubus:
https://doi.org/10.64898/2026.05.05.723051
#Anthocyanins #Transcriptomics #PlantScience #Fruits
@PuckerLab -
Curious about the dark side of plant biology?
Check out our latest preprint on the secrets of black pigmentation in Rubus:
https://doi.org/10.64898/2026.05.05.723051
#Anthocyanins #Transcriptomics #PlantScience #Fruits
@PuckerLab -
Curious about the dark side of plant biology?
Check out our latest preprint on the secrets of black pigmentation in Rubus:
https://doi.org/10.64898/2026.05.05.723051
#Anthocyanins #Transcriptomics #PlantScience #Fruits
@PuckerLab -
Curious about the dark side of plant biology?
Check out our latest preprint on the secrets of black pigmentation in Rubus:
https://doi.org/10.64898/2026.05.05.723051
#Anthocyanins #Transcriptomics #PlantScience #Fruits
@PuckerLab -
🧬 Could a single metric decode how genes are regulated across cells?
🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0044
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics
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🧬 Could a single metric decode how genes are regulated across cells?
🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0044
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics
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🧬 Could a single metric decode how genes are regulated across cells?
🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0044
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics
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🧬 Could a single metric decode how genes are regulated across cells?
🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0044
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics
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🧬 Could a single metric decode how genes are regulated across cells?
🔗 Regulation Ratio: A Singular Multi-Omic Measurement of Gene Regulatory Mechanisms. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0044
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#GeneRegulation #Genomics #MultiOmics #SystemsBiology #Bioinformatics #ComputationalBiology #MolecularBiology #RNA #GeneExpression #Epigenetics #Transcriptomics
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🧬 What if disease isn’t written in DNA, but in how RNA is edited and spliced?
🔗 Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0052
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#RNASequencing #Genomics #Transcriptomics #PrecisionMedicine #MolecularBiology #Bioinformatics #NextGenSequencing #RNA #DNA
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🧬 What if disease isn’t written in DNA, but in how RNA is edited and spliced?
🔗 Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0052
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#RNASequencing #Genomics #Transcriptomics #PrecisionMedicine #MolecularBiology #Bioinformatics #NextGenSequencing #RNA #DNA
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🧬 What if disease isn’t written in DNA, but in how RNA is edited and spliced?
🔗 Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0052
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#RNASequencing #Genomics #Transcriptomics #PrecisionMedicine #MolecularBiology #Bioinformatics #NextGenSequencing #RNA #DNA
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🧬 What if disease isn’t written in DNA, but in how RNA is edited and spliced?
🔗 Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0052
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#RNASequencing #Genomics #Transcriptomics #PrecisionMedicine #MolecularBiology #Bioinformatics #NextGenSequencing #RNA #DNA
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🧬 What if disease isn’t written in DNA, but in how RNA is edited and spliced?
🔗 Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases. Computational and Structural Biotechnology Journal (CSBJ). DOI: https://doi.org/10.34133/csbj.0052
📚 CSBJ - A Science Partner Journal: https://spj.science.org/journal/csbj
#RNASequencing #Genomics #Transcriptomics #PrecisionMedicine #MolecularBiology #Bioinformatics #NextGenSequencing #RNA #DNA
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How could bisphenol A raise depression risk? Study identifies six key molecular targets
Researchers combined genetic epidemiology, transcriptomics, molecular docking, and mous…
#NewsBeep #News #Health #AU #Australia #Blood #Cell #Chemicals #depression #depressivedisorder #ELISA #Endocrine #epidemiology #estrogen #Gene #GeneExpression #Genetic #Kinase #majordepressivedisorder #Mentalhealth #protein #psychiatry #publichealth #Receptor #research #Transcriptomics
https://www.newsbeep.com/au/577535/ -
How could bisphenol A raise depression risk? Study identifies six key molecular targets
Researchers combined genetic epidemiology, transcriptomics, molecular docking, and mous…
#NewsBeep #News #Health #AU #Australia #Blood #Cell #Chemicals #depression #depressivedisorder #ELISA #Endocrine #epidemiology #estrogen #Gene #GeneExpression #Genetic #Kinase #majordepressivedisorder #Mentalhealth #protein #psychiatry #publichealth #Receptor #research #Transcriptomics
https://www.newsbeep.com/au/577535/ -
https://www.europesays.com/ie/414176/ How could bisphenol A raise depression risk? Study identifies six key molecular targets #blood #Cell #chemicals #Depression #DepressiveDisorder #Éire #ELISA #Endocrine #Epidemiology #estrogen #Gene #GeneExpression #Genetic #Health #IE #Ireland #Kinase #MajorDepressiveDisorder #MentalHealth #Protein #Psychiatry #PublicHealth #Receptor #Research #Transcriptomics
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"Cellular morphology emerges from polygenic, distributed transcriptional variation", Paylakhi et al. 2026
https://www.biorxiv.org/content/10.64898/2026.03.12.711281v1 -
"Cellular morphology emerges from polygenic, distributed transcriptional variation", Paylakhi et al. 2026
https://www.biorxiv.org/content/10.64898/2026.03.12.711281v1 -
"Cellular morphology emerges from polygenic, distributed transcriptional variation", Paylakhi et al. 2026
https://www.biorxiv.org/content/10.64898/2026.03.12.711281v1 -
"Cellular morphology emerges from polygenic, distributed transcriptional variation", Paylakhi et al. 2026
https://www.biorxiv.org/content/10.64898/2026.03.12.711281v1 -
"Cellular morphology emerges from polygenic, distributed transcriptional variation", Paylakhi et al. 2026
https://www.biorxiv.org/content/10.64898/2026.03.12.711281v1 -
https://www.europesays.com/ie/384178/ New insights highlight multifaceted roles of CD4+ T cells in tumor immunity #Antigen #cancer #CancerImmunotherapy #CD4 #Cell #CellBiology #Chronic #Efficacy #Éire #Exhaustion #hospital #IE #immunity #immunotherapy #Ireland #medicine #Metabolism #Research #Technology #Transcriptomics #Tumor
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Youthful antics predict lifespan — at least for these fish
You snooze, you lose: young killifish (Nothobranchius furzeri) that take daytime naps have relatively short lives. Credit: Andrew…
#NewsBeep #News #Science #Ageing #Animalbehaviour #AU #Australia #HumanitiesandSocialSciences #multidisciplinary #Transcriptomics
https://www.newsbeep.com/au/536817/ -
Youthful antics predict lifespan — at least for these fish
You snooze, you lose: young killifish (Nothobranchius furzeri) that take daytime naps have relatively short lives. Credit: Andrew…
#NewsBeep #News #Science #Ageing #Animalbehaviour #AU #Australia #HumanitiesandSocialSciences #multidisciplinary #Transcriptomics
https://www.newsbeep.com/au/536817/ -
Investigating microglia’s role in Alzheimer’s pathology
Announcing a new article publication for BIO Integration journal. Alzheimer’s disease (AD) is a neurodegenerative disorder and the…
#NewsBeep #News #Health #Agonist #Alzheimer'sdisease #Antibody #Brain #CA #Canada #Cell #CentralNervousSystem #Dementia #language #Ligand #Microglia #MonoclonalAntibody #nervoussystem #neurodegenerativedisorder #Pathology #Receptor #RNA #RNAsequencing #Transcriptomics
https://www.newsbeep.com/ca/508841/ -
https://www.europesays.com/ie/363426/ Investigating microglia’s role in Alzheimer’s pathology #Agonist #Alzheimer'sDisease #Antibody #Brain #Cell #CentralNervousSystem #dementia #Éire #Health #IE #Ireland #Language #Ligand #microglia #MonoclonalAntibody #NervousSystem #NeurodegenerativeDisorder #Pathology #Receptor #RNA #RNASequencing #Transcriptomics
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New spatial omics platform advances biomedical research in Spain
Spatial omics is a new generation of technologies that allow scientists to study …
#Spain #ES #Europe #Europa #EU #Bioinformatics #cancer #clarity #Gene #genes #Genomic #Genomics #Histopathology #ImmuneSystem #medicine #Microscopy #Neurodegeneration #next-generation #PrecisionMedicine #Protein #ProteinAnalysis #Proteomics #research #SamplePreparation #spain #technology #Top-Down #Transcriptomics
https://www.europesays.com/2767829/ -
https://www.europesays.com/uk/754232/ New spatial omics platform advances biomedical research in Spain #Bioinformatics #Cancer #CLARITY #EU #Europe #Gene #Genes #Genomic #Genomics #Histopathology #ImmuneSystem #Medicine #Microscopy #Neurodegeneration #NextGeneration #PrecisionMedicine #Protein #ProteinAnalysis #proteomics #Research #SamplePreparation #Spain #Technology #TopDown #Transcriptomics
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https://www.europesays.com/ie/329335/ New spatial omics platform advances biomedical research in Spain #Bioinformatics #cancer #CLARITY #Éire #Gene #Genes #Genomic #genomics #Histopathology #IE #ImmuneSystem #Ireland #medicine #Microscopy #Neurodegeneration #NextGeneration #PrecisionMedicine #Protein #ProteinAnalysis #Proteomics #Research #SamplePreparation #Science #Technology #TopDown #Transcriptomics
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New spatial omics platform advances biomedical research in Spain https://www.byteseu.com/1788012/ #Bioinformatics #Cancer #clarity #GENE #Genes #Genomic #genomics #Histopathology #ImmuneSystem #Medicine #Microscopy #Neurodegeneration #NextGeneration #PrecisionMedicine #Protein #ProteinAnalysis #Proteomics #Research #SamplePreparation #Spain #Technology #TopDown #Transcriptomics
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Restoring protein production in motor neuron axons
Researchers at VIB and KU Leuven have identified a molecular process that allows motor neurons to maintain protein…
#NewsBeep #News #Science #amyotrophiclateralsclerosis #AU #Australia #Brain #Gene #GeneExpression #MotorNeurons #neurodegeneration #Neurons #Neuroscience #protein #ProteinSynthesis #research #Sclerosis #Transcriptomics #Translation
https://www.newsbeep.com/au/408337/ -
At #PAG33? Stop by the Galaxy booth to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. #Assembly, #Transcriptomics, #Epigenetics, and much more!
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At #PAG33? Stop by the Galaxy booth to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. #Assembly, #Transcriptomics, #Epigenetics, and much more!
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At #PAG33? Stop by the Galaxy booth to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. #Assembly, #Transcriptomics, #Epigenetics, and much more!
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At #PAG33? Stop by the Galaxy booth to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. #Assembly, #Transcriptomics, #Epigenetics, and much more!
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At #PAG33? Stop by the Galaxy booth to get snacks and talk with us about how we can help you get FREE, reproduceable, publishable high performance computing workflows. #Assembly, #Transcriptomics, #Epigenetics, and much more!
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https://www.europesays.com/ie/199053/ Transcriptomic analysis of a compatible tobacco-herbivore interaction and the role of jasmonoyl-L-isoleucine hydrolase 1 in response to growth/defense trade-off | BMC Plant Biology #Agriculture #CRISPRCas9 #Éire #Growth/defenseTradeOff #Herbivory #IE #Ireland #JasmonoylLIsoleucineHydrolase(JIH1) #NNicotianaTabacum(tobacco) #PlantSciences #Science #Transcriptomics #TreeBiology
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https://www.europesays.com/ie/197464/ From function to omics: endophytic Beauveria bassiana promotes maize growth by activating phytohormone signaling pathways under elevated carbon dioxide | BMC Plant Biology #Agriculture #ClimateChange #Éire #EntomopathogenicFungi #IE #Ireland #MetabolomicsResearch #Phytohormone #PlantSciences #Science #Transcriptomics #TreeBiology
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Multimodal learning enables chat-based exploration of single-cell data
Multimodal training data of paired transcriptomes and text To establish a large training dataset of transcrip…
#NewsBeep #News #US #USA #UnitedStates #UnitedStatesOfAmerica #Science #Agriculture #Bioinformatics #BiomedicalEngineering/Biotechnology #Biomedicine #biotechnology #Generegulationinimmunecells #general #LifeSciences #machinelearning #Preclinicalresearch #Software #Transcriptomics
https://www.newsbeep.com/us/286909/ -
Multimodal learning enables chat-based exploration of single-cell data
Multimodal training data of paired transcriptomes and text To establish a large training dataset of transcrip…
#NewsBeep #News #US #USA #UnitedStates #UnitedStatesOfAmerica #Science #Agriculture #Bioinformatics #BiomedicalEngineering/Biotechnology #Biomedicine #biotechnology #Generegulationinimmunecells #general #LifeSciences #machinelearning #Preclinicalresearch #Software #Transcriptomics
https://www.newsbeep.com/us/286909/ -
https://www.europesays.com/uk/564348/ Multimodal learning enables chat-based exploration of single-cell data #Agriculture #Bioinformatics #BiomedicalEngineering/Biotechnology #Biomedicine #biotechnology #GeneRegulationInImmuneCells #general #LifeSciences #MachineLearning #PreclinicalResearch #Science #software #Transcriptomics #UK #UnitedKingdom
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Is spatial transcriptomics data preprocessing giving you a headache? You're not alone! 🤯
Join our webinar designed for new researchers to simplify the complex world of image-based spatial omics. We'll walk through the practical workflow step-by-step, from initial cell segmentation to cleaning up your data.
Get the foundational skills you need. 📅 Sign up here: https://t1p.de/lqbg1#Transcriptomics #SpatialTranscriptomics #Omics #DataScience #ResearchWebinar #GHGA #ELIXIR #deNBI