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Accelerating Neuroscience Research by Unifying Knowledge Representation and Analysis Through a Domain Specific Language

Deliverables

Data Management Plan

This deliverable is composed of three axes: 1) Software deliverable: software developed by this action will be, after publication, release publicly under a licence appropriate for it's distribution. For this within the first 6 months we will set up a repository to distribute the software produced during this project. 2) Referencing of publicly available data used: Publicly available data used by this project will be referenced to allow others it's precise identification and the reproduction of results generated by this project. The datasets used during this project will be decided during the first 6 months such that they will be publicly accessible under reasonable conditions. 3) Distribution of generated data: Data generated by this project will be released in platforms such as OpenAire with a licence allowing it's use under reasonable conditions. Within the first 6 months the distribution channels and desired licence for generated data will be decided.

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Publications

Complex Coordinate-Based Meta-Analysis with Probabilistic Programming

Author(s): Iovene, Valentin; Zanitti, Gaston; Wassermann, Demian
Published in: Proceedings of the AAAI Conference on Artificial Intelligence, 2021
Publisher: Association for the Advancement of Artificial Intelligence
DOI: 10.1609/aaai.v35i1.16096

Probabilistic Programming in neurolang: Bridging the Gap Between Cognitive Science and Statistical Modeling

Author(s): Valentin Iovene; Demian Wassermann
Published in: Organization for Human Brain Mapping, 2019
Publisher: Organization for Human Brain Mapping

Text to Brain: Predicting the Spatial Distribution of Neuroimaging Observations from Text Reports

Author(s): Jérôme Dockès, Demian Wassermann, Russell Poldrack, Fabian Suchanek, Bertrand Thirion, Gaël Varoquaux
Published in: Medical Image Computing and Computer Assisted Intervention – MICCAI 2018 - 21st International Conference, Granada, Spain, September 16-20, 2018, Proceedings, Part III, 11072, 2018, Page(s) 584-592, ISBN 978-3-030-00930-4
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-00931-1_67

A Novel Sulcal Hierarchy Based on Manually Labelled Sulci

Author(s): Machlouzarides-Shalit, Antonia; Iovene, Valentin; Makris, Nikos; Wassermann, Demian
Published in: Organization for Human Brain Mapping, 2019
Publisher: Organization for Human Brain Mapping

ADAVI: Automatic Dual Amortized Variational Inference Applied To Pyramidal Bayesian Models

Author(s): Rouillard, Louis; Wassermann, Demian
Published in: International Conference in Leraning Representations, 2021
Publisher: International Conference in Leraning Representations
DOI: 10.48550/arxiv.2106.12248

Fine-grain atlases of functional modes for fMRI analysis

Author(s): Kamalaker Dadi, Gaël Varoquaux, Antonia Machlouzarides-Shalit, Krzysztof J. Gorgolewski, Demian Wassermann, Bertrand Thirion, Arthur Mensch
Published in: NeuroImage, 221, 2020, Page(s) 117126, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2020.117126

Meta-Analysis of the Functional Neuroimaging Literature with Probabilistic Logic Programming

Author(s): Majd Abdallah; Valentin Iovene; Gaston Zanitti; Demian Wassermann
Published in: Scientific Reports, 20452322, 2022, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1101/2022.02.25.481931

Functional gradients in the human lateral prefrontal cortex revealed by a comprehensive coordinate-based meta-analysis

Author(s): Majd Abdallah; Gaston Zanitti; Valentin Iovene; Demian Wassermann
Published in: eLife, 2050084X, 2022, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.76926

The visual word form area (VWFA) is part of both language and attention circuitry

Author(s): Lang Chen, Demian Wassermann, Daniel A. Abrams, John Kochalka, Guillermo Gallardo-Diez, Vinod Menon
Published in: Nature Communications, 10/1, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-019-13634-z

A comparison of three fiber tract delineation methods and their impact on white matter analysis

Author(s): Valerie J. Sydnor, Ana María Rivas-Grajales, Amanda E. Lyall, Fan Zhang, Sylvain Bouix, Sarina Karmacharya, Martha E. Shenton, Carl-Fredrik Westin, Nikos Makris, Demian Wassermann, Lauren J. O'Donnell, Marek Kubicki
Published in: NeuroImage, 178, 2018, Page(s) 318-331, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2018.05.044

The visual word form area (VWFA) is part of both language and attention circuitry

Author(s): Lang Chen, Demian Wassermann , Daniel Abrams , John Kochalka , Guillermo Gallardo-Diez , Vinod Menon
Published in: Nature Communications, 2019, ISSN 2041-1723
Publisher: Nature Publishing Group

Foundational number sense training gains are predicted by hippocampal–parietal circuits

Author(s): Hyesang Chang; Lang Chen; Yuan Zhang; Ye Xie; Carlo de Los Angeles; Emma Adair; Gaston Zanitti; Demian Wassermann; Miriam Rosenberg-Lee; Vinod Menon
Published in: Journal of Neuroscience, 02706474, 2022, ISSN 0270-6474
Publisher: Society for Neuroscience
DOI: 10.1523/jneurosci.1005-21.2022

Microstructural organization of human insula is linked to its macrofunctional circuitry and predicts cognitive control

Author(s): Vinod Menon, Guillermo Gallardo, Mark A Pinsk, Van-Dang Nguyen, Jing-Rebecca Li, Weidong Cai, Demian Wassermann
Published in: eLife, 9, 2020, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.53470

Probabilistic Logic for Coordinate-Based Meta-Analysis of Functional Segregation in the Brain

Author(s): Majd Abdallah; Valentin Iovene; Demian Wassermann
Published in: Organization for Human Brain Mapping, 2022
Publisher: Organization for Human Brain Mapping

PAVI: Plate-Amortized Variational Inference

Author(s): Rouillard, Louis; Moreau, Thomas; Wassermann, Demian
Published in: ArXiv, 2022
Publisher: ArXiV
DOI: 10.48550/arxiv.2206.05111

Bridging the Gap: From Neuroanatomical Knowledge to Tractography of Brain Pathways

Author(s): Guillermo Gallardo, Demian Wassermann, Alfred Anwander
Published in: BioRxiv, 2020
Publisher: BioRxiv
DOI: 10.1101/2020.08.01.232116

Probabilistic Programming in neurolang: Bridging the Gap Between Cognitive Science and Statistical Modeling

Author(s): Valentin Iovene, Demian Wassermann
Published in: Organisation for Human Brain Mapping, Yearly, 2020
Publisher: Organisation for Human Brain Mapping

Sensing Von Economo Neurons in the Insula with Multi-shell Diffusion MRI

Author(s): Wassermann , Demian; Nguyen , Dang Van; Gallardo , Guillermo; Li , Jing-Rebecca; Cai , Weidong; Menon , Vinod
Published in: International Society for Magnetic Resonance in Medicine, 1, 2019
Publisher: International Society for Magnetic Resonance in Medicine

A Novel Sulcal Hierarchy Based on Manually Labelled Sulci

Author(s): Antonia Machlouzarides-Shalit, Valentin Iovene, Nikos Makris, Demian Wassermann
Published in: Organization for Human Brain Mapping, Yearly, 2019
Publisher: Organization for Human Brain Mapping

Quantitative modeling links in vivo microstructural and macrofunctional organization of human and macaque insular cortex, and predicts cognitive control abilities

Author(s): Vinod Menon, Gallardo Guillermo, Mark A. Pinsk, Van-Dang Nguyen, Jing-Rebecca Li, Weidong Cai, Demian Wassermann
Published in: BioRxiv, 2019
Publisher: BioRxiv
DOI: 10.1101/662601

Scalable Query Answering under Uncertainty to Neuroscientific Ontological Knowledge: The NeuroLang Approach

Author(s): Zanitti, Gaston; Soto, Yamil; Iovene, Valentin; Martinez, Maria Vanina; Rodriguez, Ricardo; Simari, Gerardo; Wassermann, Demian
Published in: ArXiv, 2022
Publisher: ArXiv
DOI: 10.48550/arxiv.2202.11333

NeuroLang: Representing Neuroanatomy with Sulcus-Specific Queries

Author(s): Antonia Machlouzarides-Shalit, Nikos Makris, Gaston Zanitti, Valentin Iovene, Guillaume Lemaitre, Guillaume Favelier, Demian Wassermann
Published in: Organization for the Human Brain Mapping, Yearly, 2020
Publisher: Organisation for the Human Brain Mapping