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Title:           Comprehensive protein datasets and benchmarking for liquid–liquid phase separation studies
Subject:         Genome Biology, https://doi.org/10.1186/s13059-025-03668-6
Keywords:        Liquid–liquid phase separation;Datasets;Integration;Driver;Client;Negative;Proteins;Disorder;Machine learning;Benchmark
Author:           Carlos Pintado-Grima 
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     Item: 
      Title: Comprehensive protein datasets and benchmarking for liquid–liquid phase separation studies
      Children: 
       Item: 
        Title: Abstract 
        Children: 
         Item: 
          Title: Background: 
         Item: 
          Title: Results: 
         Item: 
          Title: Conclusions: 
       Item: 
        Title: Background
       Item: 
        Title: Results
        Children: 
         Item: 
          Title: Integrated dataset generation of client, driver, and potential negative proteins in LLPS
         Item: 
          Title: LLPS-positive proteins and DisProt negative dataset display a similarly low proportion of ordered residues
         Item: 
          Title: Physicochemical analysis of LLPS properties indicates differences between drivers, clients, and negative proteins
         Item: 
          Title: Benchmarking current LLPS predictive tools with independent protein datasets
       Item: 
        Title: Discussion
       Item: 
        Title: Conclusions
       Item: 
        Title: Methods
        Children: 
         Item: 
          Title: Filtering clients and drivers
         Item: 
          Title: Obtaining unambiguous clients and unambiguous drivers
          Children: 
           Item: 
            Title: Category specificity
           Item: 
            Title: Category intersection
         Item: 
          Title: Generation of negative datasets
         Item: 
          Title: Protein disorderorder annotation
         Item: 
          Title: General protein annotation with UniProt
         Item: 
          Title: Disordered-related sequential elements: IDRs and PrLDs
         Item: 
          Title: Physicochemical property analysis
         Item: 
          Title: Benchmark analysis
       Item: 
        Title: Acknowledgements
       Item: 
        Title: References
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