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Drosophila melanogaster

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Transcriptomes of lineage-specific Drosophila neuroblasts profiled by genetic targeting and robotic sorting.

Development (Cambridge, England)
A brain consists of numerous distinct neurons arising from a limited number of progenitors, called neuroblasts in Drosophila. Each neuroblast produces a specific neuronal lineage. To unravel the transcriptional networks that underlie the development ...

Genome-Wide Detection and Analysis of Multifunctional Genes.

PLoS computational biology
Many genes can play a role in multiple biological processes or molecular functions. Identifying multifunctional genes at the genome-wide level and studying their properties can shed light upon the complexity of molecular events that underpin cellular...

Dexterous robotic manipulation of alert adult Drosophila for high-content experimentation.

Nature methods
We present a robot that enables high-content studies of alert adult Drosophila by combining operations including gentle picking; translations and rotations; characterizations of fly phenotypes and behaviors; microdissection; or release. To illustrate...

Computational algorithms to predict Gene Ontology annotations.

BMC bioinformatics
BACKGROUND: Gene function annotations, which are associations between a gene and a term of a controlled vocabulary describing gene functional features, are of paramount importance in modern biology. Datasets of these annotations, such as the ones pro...

Computationally predicting protein-RNA interactions using only positive and unlabeled examples.

Journal of bioinformatics and computational biology
Protein-RNA interactions (PRIs) are considerably important in a wide variety of cellular processes, ranging from transcriptional and post-transcriptional regulations of gene expression to the active defense of host against virus. With the development...

Machine Learning Scoring Reveals Increased Frequency of Falls Proximal to Death in Drosophila melanogaster.

The journals of gerontology. Series A, Biological sciences and medical sciences
Falls are a significant cause of human disability and death. Risk factors include normal aging, neurodegenerative disease, and sarcopenia. Drosophila melanogaster is a powerful model for study of normal aging and for modeling human neurodegenerative ...

A novel interpretable deep learning-based computational framework designed synthetic enhancers with broad cross-species activity.

Nucleic acids research
Enhancers play a critical role in dynamically regulating spatial-temporal gene expression and establishing cell identity, underscoring the significance of designing them with specific properties for applications in biosynthetic engineering and gene t...

Learning meaningful representation of single-neuron morphology via large-scale pre-training.

Bioinformatics (Oxford, England)
SUMMARY: Single-neuron morphology, the study of the structure, form, and shape of a group of specialized cells in the nervous system, is of vital importance to define the type of neurons, assess changes in neuronal development and aging and determine...

High-throughput genetic manipulation of multicellular organisms using a machine-vision guided embryonic microinjection robot.

Genetics
Microinjection is a technique used for transgenesis, mutagenesis, cell labeling, cryopreservation, and in vitro fertilization in multiple single and multicellular organisms. Microinjection requires specialized skills and involves rate-limiting and la...

DeepGenGrep: a general deep learning-based predictor for multiple genomic signals and regions.

Bioinformatics (Oxford, England)
MOTIVATION: Accurate annotation of different genomic signals and regions (GSRs) from DNA sequences is fundamentally important for understanding gene structure, regulation and function. Numerous efforts have been made to develop machine learning-based...