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Sha** Drosophila eggs: unveiling the roles of Arpc1 and cpb in morphogenesis
The Drosophila egg chamber (EC) starts as a spherical tissue at the beginning. With maturation, the outer follicle cells of EC collectively migrate...
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quantms: a cloud-based pipeline for quantitative proteomics enables the reanalysis of public proteomics data
The volume of public proteomics data is rapidly increasing, causing a computational challenge for large-scale reanalysis. Here, we introduce quantms (
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Programming tumor evolution with selection gene drives to proactively combat drug resistance
Most targeted anticancer therapies fail due to drug resistance evolution. Here we show that tumor evolution can be reproducibly redirected to...
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LongTR: genome-wide profiling of genetic variation at tandem repeats from long reads
Tandem repeats are frequent across the human genome, and variation in repeat length has been linked to a variety of traits. Recent improvements in...
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VirRep: a hybrid language representation learning framework for identifying viruses from human gut metagenomes
Identifying viruses from metagenomes is a common step to explore the virus composition in the human gut. Here, we introduce VirRep, a hybrid language...
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Systematic comparison of sequencing-based spatial transcriptomic methods
Recent developments of sequencing-based spatial transcriptomics (sST) have catalyzed important advancements by facilitating transcriptome-scale...
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Gapr for large-scale collaborative single-neuron reconstruction
Whole-brain analysis of single-neuron morphology is crucial for unraveling the complex structure of the brain. However, large-scale neuron...
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SETDB1 regulates short interspersed nuclear elements and chromatin loop organization in mouse neural precursor cells
BackgroundTransposable elements play a critical role in maintaining genome architecture during neurodevelopment. Short Interspersed Nuclear Elements...
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Gut microbiota DPP4-like enzymes are increased in type-2 diabetes and contribute to incretin inactivation
BackgroundThe gut microbiota controls broad aspects of human metabolism and feeding behavior, but the basis for this control remains largely unclear....
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Filter bank temporally local multivariate synchronization index for SSVEP-based BCI
BackgroundMultivariate synchronization index (MSI) has been successfully applied for frequency detection in steady state visual evoked potential...
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Identification of common genetic factors and immune-related pathways associating more than two autoimmune disorders: implications on risk, diagnosis, and treatment
Autoimmune disorders (ADs) are chronic conditions resulting from failure or breakdown of immunological tolerance, resulting in the host immune system...
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SGCP: a spectral self-learning method for clustering genes in co-expression networks
BackgroundA widely used approach for extracting information from gene expression data employs the construction of a gene co-expression network and...
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Detecting haplotype-specific transcript variation in long reads with FLAIR2
BackgroundRNA-seq has brought forth significant discoveries regarding aberrations in RNA processing, implicating these RNA variants in a variety of...
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Tracking-seq reveals the heterogeneity of off-target effects in CRISPR–Cas9-mediated genome editing
The continued development of novel genome editors calls for a universal method to analyze their off-target effects. Here we describe a versatile...
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Unsupervised modeling of mutational landscapes of adeno-associated viruses viability
Adeno-associated viruses 2 (AAV2) are minute viruses renowned for their capacity to infect human cells and akin organisms. They have recently emerged...
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Hitac: a hierarchical taxonomic classifier for fungal ITS sequences compatible with QIIME2
BackgroundFungi play a key role in several important ecological functions, ranging from organic matter decomposition to symbiotic associations with...
