2,750 results found
    1. Computational and Systems Biology

    A computational interactome and functional annotation for the human proteome

    José Ignacio Garzón et al.
    A machine-learning approach is used to predict 1.35 million interactions for 85% of the human proteome.
    1. Evolutionary Biology

    Primary and promiscuous functions coexist during evolutionary innovation through whole protein domain acquisitions

    José Antonio Escudero et al.
    The coexistence of ancestral and innovative functions is possible and fosters evolutionary innovation in events involving the acquisition of whole protein domains.
    1. Biochemistry and Chemical Biology
    2. Computational and Systems Biology

    Deep transcriptome annotation enables the discovery and functional characterization of cryptic small proteins

    Sondos Samandi et al.
    Conventional annotations of coding sequences have missed thousands of short open-reading frames encoding proteins that are conserved and with specific functions.
    1. Chromosomes and Gene Expression
    2. Computational and Systems Biology

    Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m6A modification

    Matthew T Parker et al.
    Sequencing mRNA directly with nanopores can reveal the authentic combinations of multiple mRNA processing events in full-length mRNA molecules in addition to identifying base modifications.
    1. Evolutionary Biology

    The genomes of polyextremophilic cyanidiales contain 1% horizontally transferred genes with diverse adaptive functions

    Alessandro W Rossoni et al.
    Horizontal gene transfer (HGT) analysis in polyextremophile red algae (Cyanidiales) provides explanations for the nonexistence of cumulative effects and eukaryotic pangenomes, and highlights differences between HGT and native genes.
    1. Evolutionary Biology
    2. Genetics and Genomics

    Innovation of heterochromatin functions drives rapid evolution of essential ZAD-ZNF genes in Drosophila

    Bhavatharini Kasinathan et al.
    Heterochromatic sequences evolve rapidly, as do ZAD-ZNF genes-encoding proteins involved in heterochromatin functions, explaining why evolutionarily dynamic ZAD-ZNF genes are more likely to be essential in Drosophila.
    1. Developmental Biology

    Building the vertebrate codex using the gene breaking protein trap library

    Noriko Ichino et al.
    The analysis of the first 1000 revertible protein trap alleles in zebrafish resulted in new functional genomic annotations and produced a panel of potential new models of human disease.
    1. Neuroscience

    Brain aging comprises many modes of structural and functional change with distinct genetic and biophysical associations

    Stephen M Smith et al.
    Imaging of structure and function in the brain from thousands of participants was used along with genetics and biophysical measures to study many different aspects of how the brain ages.
    1. Computational and Systems Biology

    Essential metabolism for a minimal cell

    Marian Breuer et al.
    A near-complete flux balance analysis model of a minimal cell demonstrates the high essentiality of its metabolic genes, agrees well with experimental essentiality data and suggests some further gene removals.
    1. Computational and Systems Biology
    2. Neuroscience

    Graphical-model framework for automated annotation of cell identities in dense cellular images

    Shivesh Chaudhary et al.
    Unbiased and automatic annotation using structured prediction framework with efficiently built data-driven atlases is more accurate than registration-based methods for cell identifications in dense images and enables fast whole-brain analysis.

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