Literature DB >> 25765323

Towards the automatic classification of neurons.

Rubén Armañanzas1, Giorgio A Ascoli2.   

Abstract

The classification of neurons into types has been much debated since the inception of modern neuroscience. Recent experimental advances are accelerating the pace of data collection. The resulting growth of information about morphological, physiological, and molecular properties encourages efforts to automate neuronal classification by powerful machine learning techniques. We review state-of-the-art analysis approaches and the availability of suitable data and resources, highlighting prominent challenges and opportunities. The effective solution of the neuronal classification problem will require continuous development of computational methods, high-throughput data production, and systematic metadata organization to enable cross-laboratory integration.
Copyright © 2015 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  big data; machine learning; metadata; neural classification; standardization

Mesh:

Year:  2015        PMID: 25765323      PMCID: PMC4417416          DOI: 10.1016/j.tins.2015.02.004

Source DB:  PubMed          Journal:  Trends Neurosci        ISSN: 0166-2236            Impact factor:   13.837


  88 in total

1.  Parameter extraction and classification of three cortical neuron types reveals two distinct adaptation mechanisms.

Authors:  Skander Mensi; Richard Naud; Christian Pozzorini; Michael Avermann; Carl C H Petersen; Wulfram Gerstner
Journal:  J Neurophysiol       Date:  2011-12-07       Impact factor: 2.714

2.  Effects of beta-catenin on dendritic morphology and simulated firing patterns in cultured hippocampal neurons.

Authors:  Jeffrey L Krichmar; David Velasquez; Giorgio A Ascoli
Journal:  Biol Bull       Date:  2006-08       Impact factor: 1.818

3.  A hierarchical structure of cortical interneuron electrical diversity revealed by automated statistical analysis.

Authors:  Shaul Druckmann; Sean Hill; Felix Schürmann; Henry Markram; Idan Segev
Journal:  Cereb Cortex       Date:  2012-09-17       Impact factor: 5.357

4.  Cell type-specific transcriptomics in the brain.

Authors:  Benjamin W Okaty; Ken Sugino; Sacha B Nelson
Journal:  J Neurosci       Date:  2011-05-11       Impact factor: 6.167

5.  Quantitative arbor analytics: unsupervised harmonic co-clustering of populations of brain cell arbors based on L-measure.

Authors:  Yanbin Lu; Lawrence Carin; Ronald Coifman; William Shain; Badrinath Roysam
Journal:  Neuroinformatics       Date:  2015-01

6.  Discovery of brainwide neural-behavioral maps via multiscale unsupervised structure learning.

Authors:  Joshua T Vogelstein; Youngser Park; Tomoko Ohyama; Rex A Kerr; James W Truman; Carey E Priebe; Marta Zlatic
Journal:  Science       Date:  2014-03-27       Impact factor: 47.728

Review 7.  Electrophysiological characterization of myenteric neurons: how do classification schemes relate?

Authors:  J C Bornstein; J B Furness; W A Kunze
Journal:  J Auton Nerv Syst       Date:  1994-06

Review 8.  Neuronal cell types and connectivity: lessons from the retina.

Authors:  H Sebastian Seung; Uygar Sümbül
Journal:  Neuron       Date:  2014-09-17       Impact factor: 17.173

Review 9.  Neuronal morphology goes digital: a research hub for cellular and system neuroscience.

Authors:  Ruchi Parekh; Giorgio A Ascoli
Journal:  Neuron       Date:  2013-03-20       Impact factor: 17.173

10.  Digital morphometry of rat cerebellar climbing fibers reveals distinct branch and bouton types.

Authors:  Kerry M Brown; Izumi Sugihara; Yoshikazu Shinoda; Giorgio A Ascoli
Journal:  J Neurosci       Date:  2012-10-17       Impact factor: 6.167

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  36 in total

1.  Morphological Neuron Classification Based on Dendritic Tree Hierarchy.

Authors:  Evelyn Perez Cervantes; Cesar Henrique Comin; Roberto Marcondes Cesar Junior; Luciano da Fontoura Costa
Journal:  Neuroinformatics       Date:  2019-01

2.  Metrics for comparing neuronal tree shapes based on persistent homology.

Authors:  Yanjie Li; Dingkang Wang; Giorgio A Ascoli; Partha Mitra; Yusu Wang
Journal:  PLoS One       Date:  2017-08-15       Impact factor: 3.240

3.  Distinct Functional Groups Emerge from the Intrinsic Properties of Molecularly Identified Entorhinal Interneurons and Principal Cells.

Authors:  Michele Ferrante; Babak Tahvildari; Alvaro Duque; Muhamed Hadzipasic; David Salkoff; Edward William Zagha; Michael E Hasselmo; David A McCormick
Journal:  Cereb Cortex       Date:  2017-06-01       Impact factor: 5.357

4.  Transcriptional Architecture of Synaptic Communication Delineates GABAergic Neuron Identity.

Authors:  Anirban Paul; Megan Crow; Ricardo Raudales; Miao He; Jesse Gillis; Z Josh Huang
Journal:  Cell       Date:  2017-09-21       Impact factor: 41.582

5.  New Features for Neuron Classification.

Authors:  Leonardo A Hernández-Pérez; Duniel Delgado-Castillo; Rainer Martín-Pérez; Rubén Orozco-Morales; Juan V Lorenzo-Ginori
Journal:  Neuroinformatics       Date:  2019-01

6.  Operations Research Methods for Estimating the Population Size of Neuron Types.

Authors:  Sarojini M Attili; Sean T Mackesey; Giorgio A Ascoli
Journal:  Ann Oper Res       Date:  2020-03-09       Impact factor: 4.854

7.  Classification of GABAergic neuron subtypes from the globus pallidus using wild-type and transgenic mice.

Authors:  Karina P Abrahao; David M Lovinger
Journal:  J Physiol       Date:  2018-07-30       Impact factor: 5.182

Review 8.  In search of a periodic table of the neurons: Axonal-dendritic circuitry as the organizing principle: Patterns of axons and dendrites within distinct anatomical parcels provide the blueprint for circuit-based neuronal classification.

Authors:  Giorgio A Ascoli; Diek W Wheeler
Journal:  Bioessays       Date:  2016-08-12       Impact factor: 4.345

9.  Efficient metadata mining of web-accessible neural morphologies.

Authors:  Masood A Akram; Bengt Ljungquist; Giorgio A Ascoli
Journal:  Prog Biophys Mol Biol       Date:  2021-05-19       Impact factor: 3.667

10.  Bayesian Sparse Regression Analysis Documents the Diversity of Spinal Inhibitory Interneurons.

Authors:  Mariano I Gabitto; Ari Pakman; Jay B Bikoff; L F Abbott; Thomas M Jessell; Liam Paninski
Journal:  Cell       Date:  2016-03-03       Impact factor: 41.582

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