Observatorio de I+D+i UPM

Memorias de investigación
Research Publications in journals:
ESPINA: a tool for the automated segmentation and counting of synapses in large stacks of electron microscopy images
Year:2011
Research Areas
  • Human morphology,
  • Computer applications,
  • Interactivity,
  • Software
Information
Abstract
The synapses in the cerebral cortex can be classified into two main types, Gray?s type I and type II, which correspond to asymmetric (mostly glutamatergic excitatory) and symmetric (inhibitory GABAergic) synapses, respectively. Hence, the quantification and identification of their different types and the proportions in which they are found, is extraordinarily important in terms of brain function. The ideal approach to calculate the number of synapses per unit volume is to analyze 3D samples reconstructed from serial sections. However, obtaining serial sections by transmission electron microscopy is an extremely time consuming and technically demanding task. Using focused ion beam/scanning electron microscope microscopy, we recently showed that virtually all synapses can be accurately identified as asymmetric or symmetric synapses when they are visualized, reconstructed, and quantified from large 3D tissue samples obtained in an automated manner. Nevertheless, the analysis, segmentation, and quantification of synapses is still a labor intensive procedure. Thus, novel solutions are currently necessary to deal with the large volume of data that is being generated by automated 3D electron microscopy. Accordingly, we have developed ESPINA, a software tool that performs the automated segmentation and counting of synapses in a reconstructed 3D volume of the cerebral cortex, and that greatly facilitates and accelerates these processes.
International
Si
JCR
Si
Title
Frontiers in Neuroanatomy
ISBN
1662-5129
Impact factor JCR
Impact info
Volume
5
10.3389/fnana.2011.00018
Journal number
18
From page
1
To page
8
Month
MARZO
Ranking
Participants
  • Autor: Juan Morales Del Olmo (UPM)
  • Autor: Lidia Alonso-Nanclares (CSCI)
  • Autor: José Rodrigo-Rodríguez (CSIC)
  • Autor: Javier De Felipe Oroquieta (UPM)
  • Autor: Angel Rodriguez Mtnez.de Bartolome (UPM)
  • Autor: Angel Merchan Perez (UPM)
Research Group, Departaments and Institutes related
  • Creador: Departamento: Arquitectura y Tecnología de Sistemas Informáticos
S2i 2020 Observatorio de investigación @ UPM con la colaboración del Consejo Social UPM
Cofinanciación del MINECO en el marco del Programa INNCIDE 2011 (OTR-2011-0236)
Cofinanciación del MINECO en el marco del Programa INNPACTO (IPT-020000-2010-22)