Cargando…

Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.

BACKGROUND: The neurobiology of mental disorders remains poorly understood despite substantial scientific efforts, due to large clinical heterogeneity and to a lack of tools suitable to map individual variability. Normative modeling is one recently successful framework that can address these problem...

Descripción completa

Detalles Bibliográficos
Autores principales: Barkema, Pieter, Rutherford, Saige, Lee, Hurng-Chun, Kia, Seyed Mostafa, Savage, Hannah, Beckmann, Christian, Marquand, Andre
Formato: Online Artículo Texto
Lenguaje:English
Publicado: F1000 Research Limited 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10474337/
https://www.ncbi.nlm.nih.gov/pubmed/37663797
http://dx.doi.org/10.12688/wellcomeopenres.19591.2
_version_ 1785145948975923200
author Barkema, Pieter
Rutherford, Saige
Lee, Hurng-Chun
Kia, Seyed Mostafa
Savage, Hannah
Beckmann, Christian
Marquand, Andre
author_facet Barkema, Pieter
Rutherford, Saige
Lee, Hurng-Chun
Kia, Seyed Mostafa
Savage, Hannah
Beckmann, Christian
Marquand, Andre
author_sort Barkema, Pieter
collection PubMed
description BACKGROUND: The neurobiology of mental disorders remains poorly understood despite substantial scientific efforts, due to large clinical heterogeneity and to a lack of tools suitable to map individual variability. Normative modeling is one recently successful framework that can address these problems by comparing individuals to a reference population. The methodological underpinnings of normative modelling are, however, relatively complex and computationally expensive. Our research group has developed the python-based normative modelling package Predictive Clinical Neuroscience toolkit (PCNtoolkit) which provides access to many validated algorithms for normative modelling. PCNtoolkit has since proven to be a strong foundation for large scale normative modelling, but still requires significant computation power, time and technical expertise to develop. METHODS: To address these problems, we introduce PCNportal. PCNportal is an online platform integrated with PCNtoolkit that offers access to pre-trained research-grade normative models estimated on tens of thousands of participants, without the need for computation power or programming abilities. PCNportal is an easy-to-use web interface that is highly scalable to large user bases as necessary. Finally, we demonstrate how the resulting normalized deviation scores can be used in a clinical application through a schizophrenia classification task applied to cortical thickness and volumetric data from the longitudinal Northwestern University Schizophrenia Data and Software Tool (NUSDAST) dataset. RESULTS: At each longitudinal timepoint, the transferred normative models achieved a mean[std. dev.] explained variance of 9.4[8.8]%, 9.2[9.2]%, 5.6[7.4]% respectively in the control group and 4.7[5.5]%, 6.0[6.2]%, 4.2[6.9]% in the schizophrenia group. Diagnostic classifiers achieved AUC of 0.78, 0.76 and 0.71 respectively. CONCLUSIONS: This replicates the utility of normative models for diagnostic classification of schizophrenia and showcases the use of PCNportal for clinical neuroimaging. By facilitating and speeding up research with high-quality normative models, this work contributes to research in inter-individual variability, clinical heterogeneity and precision medicine.
format Online
Article
Text
id pubmed-10474337
institution National Center for Biotechnology Information
language English
publishDate 2023
publisher F1000 Research Limited
record_format MEDLINE/PubMed
spelling pubmed-104743372023-11-20 Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists. Barkema, Pieter Rutherford, Saige Lee, Hurng-Chun Kia, Seyed Mostafa Savage, Hannah Beckmann, Christian Marquand, Andre Wellcome Open Res Software Tool Article BACKGROUND: The neurobiology of mental disorders remains poorly understood despite substantial scientific efforts, due to large clinical heterogeneity and to a lack of tools suitable to map individual variability. Normative modeling is one recently successful framework that can address these problems by comparing individuals to a reference population. The methodological underpinnings of normative modelling are, however, relatively complex and computationally expensive. Our research group has developed the python-based normative modelling package Predictive Clinical Neuroscience toolkit (PCNtoolkit) which provides access to many validated algorithms for normative modelling. PCNtoolkit has since proven to be a strong foundation for large scale normative modelling, but still requires significant computation power, time and technical expertise to develop. METHODS: To address these problems, we introduce PCNportal. PCNportal is an online platform integrated with PCNtoolkit that offers access to pre-trained research-grade normative models estimated on tens of thousands of participants, without the need for computation power or programming abilities. PCNportal is an easy-to-use web interface that is highly scalable to large user bases as necessary. Finally, we demonstrate how the resulting normalized deviation scores can be used in a clinical application through a schizophrenia classification task applied to cortical thickness and volumetric data from the longitudinal Northwestern University Schizophrenia Data and Software Tool (NUSDAST) dataset. RESULTS: At each longitudinal timepoint, the transferred normative models achieved a mean[std. dev.] explained variance of 9.4[8.8]%, 9.2[9.2]%, 5.6[7.4]% respectively in the control group and 4.7[5.5]%, 6.0[6.2]%, 4.2[6.9]% in the schizophrenia group. Diagnostic classifiers achieved AUC of 0.78, 0.76 and 0.71 respectively. CONCLUSIONS: This replicates the utility of normative models for diagnostic classification of schizophrenia and showcases the use of PCNportal for clinical neuroimaging. By facilitating and speeding up research with high-quality normative models, this work contributes to research in inter-individual variability, clinical heterogeneity and precision medicine. F1000 Research Limited 2023-11-20 /pmc/articles/PMC10474337/ /pubmed/37663797 http://dx.doi.org/10.12688/wellcomeopenres.19591.2 Text en Copyright: © 2023 Barkema P et al. https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software Tool Article
Barkema, Pieter
Rutherford, Saige
Lee, Hurng-Chun
Kia, Seyed Mostafa
Savage, Hannah
Beckmann, Christian
Marquand, Andre
Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title_full Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title_fullStr Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title_full_unstemmed Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title_short Predictive Clinical Neuroscience Portal (PCNportal): instant online access to research-grade normative models for clinical neuroscientists.
title_sort predictive clinical neuroscience portal (pcnportal): instant online access to research-grade normative models for clinical neuroscientists.
topic Software Tool Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10474337/
https://www.ncbi.nlm.nih.gov/pubmed/37663797
http://dx.doi.org/10.12688/wellcomeopenres.19591.2
work_keys_str_mv AT barkemapieter predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT rutherfordsaige predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT leehurngchun predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT kiaseyedmostafa predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT savagehannah predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT beckmannchristian predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists
AT marquandandre predictiveclinicalneuroscienceportalpcnportalinstantonlineaccesstoresearchgradenormativemodelsforclinicalneuroscientists