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Biology subjects

Scicolone, G.

Publications and source records attributed to Scicolone, G..

2 recordsLinked to original sources

EphA3 couples attractive guidance to persistent retinal axon growth through modulation of EphA4 forward signaling in a plasma membrane cholesterol-dependent manner

Topographic mapping requires retinal axons not only to avoid inappropriate targets but also to advance directionally through permissive and attractive territories. Using chick retinal ganglion cells in stripe and Dunn chamber gradient assays, we investigated how extracellular EphA3 coordinates the directional guidance and growth dynamics of nasal axons. Nasal axons preferentially grew on EphA3-containing stripes and turned toward increasing concentrations of EphA3 in soluble gradients. EphA3 also increased axonal growth velocity, primarily by prolonging extension phases and reducing growth interruptions rather than by increasing maximal extension-phase velocity. Pharmacological inhibition of EphA4 enhanced axonal extension but abolished EphA3-dependent attraction, indicating that basal EphA4 activity is required for spatial guidance even though EphA4 signaling can constrain axonal advance. Plasma membrane cholesterol depletion altered basal growth dynamics and attenuated EphA3-dependent turning and extension persistence. Together, these findings identify EphA3 as a noncanonical attractive cue that coordinates directional guidance with persistent nasal axon growth through mechanisms dependent on EphA4 activity and membrane cholesterol. They also suggest that sustained EphA4 inhibition may promote axonal growth while compromising topographic targeting.

developmental biology↗

A methodological framework for accommodating Cancer Genomics Information in OMOP-CDM using Variation Representation Specification (VRS).

The OMOP Common Data Model (OMOP CDM) in which observational health data are organized and stored is a broadly accepted data standard which helps clinical research facilitating federation study protocols. In case of cancer studies, there is a growing need to incorporate cancer genomics data in a standardized way. Starting from a brief overview of the basic features of the OMOP CDM, we imagine a path of increasing complexity for including known biomarker genomic data coming from pathology or reports or clinical laboratory findings, towards storing thousands of known and unknown variants coming from genome sequencing data. Data should be stored using standardized identifiers, including those defined by the Global Alliance for Genomics and Health (GA4GH). We propose a scalable strategy for storing genomics variants in increasingly complex scenarios and present KOIOS-VRS, a pipeline that automates the conversion of VCF files into OMOP compatible format.

bioinformatics↗