Towards an Architecture of a Multi-purpose, User-Extendable Reference Human Brain Atlas

Nowinski, Wiesław L.

doi:10.1007/s12021-021-09555-2

Cited by 10 publications

(10 citation statements)

References 116 publications

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“…Finally, based on the proposed approach (and the author's long-term brain atlas creation experience [Nowinski, 2017b]) it is believed that an excellent tool for cerebral gyro-sulci exploration and studying would be a dedicated interactive 3D atlas with volumetric, decomposable, color-coded, and labelled sulci and gyri which can be individually selected, manipulated, explored, and quantified, similarly to non-cortical structures in the brain atlas (Nowinski, 2017a). Such an atlas also shall have a dynamic content extendable with new research studies exploiting the multi-purpose and user-extendable brain atlas architecture proposed in (Nowinski, 2021) bridging in this way education and research applications.…”

Section: Discussionmentioning

confidence: 99%

On the definition, construction, and presentation of the human cerebral sulci: A morphology‐based approach

Nowinski

2022

Journal of Anatomy

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Although the term sulcus is known for almost four centuries, its formal, precise, consistent, constructive, and quantitative definition is practically lacking. As the cerebral sulci (and gyri) are vital in cortical anatomy which, in turn, is central in neuroeducation and neuroimage processing, a new sulcus definition is needed. The contribution of this work is threefold, namely to (1) propose a new, morphology-based definition of the term sulcus (and consequently that of gyrus), (2) formulate a constructive method for sulcus calculation, and (3) provide a novel way for the presentation of sulci. The sulcus is defined here as a volumetric region on the cortical mantle between adjacent gyri separated from them at the levels of their gyral white matter crest lines.Consequently, the sulcal inner surface is demarcated by the crest lines of the gyral white matter of its adjacent gyri. Correspondingly, the gyrus is defined as a volumetric region on the cortical mantle separated from its adjacent sulci at the level of its gyral white matter crest line. This volumetric sulcus definition is conceptually simple, anatomy-based, educationally friendly, quantitative, and constructive. Considering the sulcus as a volumetric object is a major differentiation from other works. Based on the introduced sulcus definition, a method for volumetric sulcus construction is proposed in two, conceptually straightforward, steps, namely, sulcal intersection formation followed by its propagation which steps are to be repeated for every sulcal segment. These sulcal and gyral constructions can be automated by applying existing methods and public tools. As a volumetric sulcus forms an imprint into the white matter, this enables prominent sulcus presentation. Since this type of presentation is novel yet unfamiliar to the reader, also a dual surface presentation was proposed here by employing the spatially co-registered white matter and cortical surfaces. The re-How to cite this article: Nowinski, W.L. (2022) On the definition, construction, and presentation of the human cerebral sulci: A morphology-based approach.

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Section: Discussionmentioning

confidence: 99%

On the definition, construction, and presentation of the human cerebral sulci: A morphology‐based approach

Nowinski

2022

Journal of Anatomy

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“…This concept has been customized to stereotactic and functional neurosurgery as a population-based, self-growing, and structural-functional multi-atlas. Subsequently, based on the atlas evolution review [4] and considering various perspectives and applications, my latest definition of the human brain atlas has evolved as follows: "the reference human brain atlas is a vehicle to gather, present, use, and discover knowledge about the human brain with a highly organized content, tools enabling a wide range of its applications, massive and heterogeneous knowledge database, and means for content and knowledge updating and growing by its user" [13]. Correspondingly, an architecture embodying such a brain atlas is proposed along with a method of its implementation [13].…”

Section: Evolution Of Brain Atlas Conceptmentioning

confidence: 99%

“…The design, development, and validation of a human brain atlas is a painstaking and time-consuming process that requires high attention to detail. The design principles of a holistic and reference brain atlas are formulated in [105], computational methods employed in brain atlas development are addressed in [106], visualization and interac-tion are discussed in [107], and a user-centric and application-balanced architecture cum implementation of a reference human brain atlas is proposed in [13].…”

Section: Creation Of Human Brain Maps and Atlasesmentioning

confidence: 99%

Advances in Neuroanatomy through Brain Atlasing

Nowinski¹

2023

Anatomia

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Human brain atlases are tools to gather, present, use, and discover knowledge about the human brain. The developments in brain atlases parallel the advances in neuroanatomy. The brain atlas evolution has been from hand-drawn cortical maps to print atlases to digital platforms which, thanks to tremendous advancements in acquisition techniques and computing, has enabled progress in neuroanatomy from gross (macro) to meso-, micro-, and nano-neuroanatomy. Advances in neuroanatomy have been feasible because of introducing new modalities, from the initial cadaveric dissections, morphology, light microscopy imaging and neuroelectrophysiology to non-invasive in vivo imaging, connectivity, electron microscopy imaging, genomics, proteomics, transcriptomics, and epigenomics. Presently, large and long-term brain projects along with big data drive the development in micro- and nano-neuroanatomy. The goal of this work is to address the relationship between neuroanatomy and human brain atlases and, particularly, the impact of these atlases on the understanding, presentation, and advancement of neuroanatomy. To better illustrate this relationship, a brief outline on the evolution of the human brain atlas concept, creation of brain atlases, atlas-based applications, and future brain-related developments is also presented. In conclusion, human brain atlases are excellent means to represent, present, disseminate, and support neuroanatomy.

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“…Furthermore, atlases can be used to detect anomalies. By comparing an individual image to the average representation of a population (the atlas), discrepancies can be identified that can detect unusual pathologies 5 and can support disease detection 6 .…”

Section: Introductionmentioning

confidence: 99%

Constructing Population-Specific Atlases from Whole Body MRI: Application to the UKBB

Starck,

Sideri-Lampretsa,

Ritter

et al. 2023

Preprint

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Population atlases are commonly utilised in medical imaging to facilitate the investigation of variability across populations. Such atlases enable the mapping of medical images into a common coordinate system, promoting comparability and enabling the study of inter-subject differences. Constructing such atlases becomes particularly challenging when working with highly heterogeneous datasets, such as whole-body images, where subjects show significant anatomical variations. In this work, we propose a pipeline for generating a standardised whole-body atlas for a highly heterogeneous population by partitioning the population into meaningful subgroups. We create six whole-body atlases that represent a healthy population average using magnetic resonance (MR) images from the UK Biobank dataset. We furthermore unbias them, and this way obtain a realistic representation of the population. In addition to the anatomical atlases, we generate probabilistic atlases that capture the distributions of abdominal fat and five abdominal organs across the population. We demonstrate different applications of these atlases, using the differences between subjects with medical conditions such as diabetes and cardiovascular diseases and healthy subjects from the atlas space. With this work, we make the constructed anatomical and label atlases publically available and anticipate them to support medical research conducted on whole-body MR images. They are available for download at this address (https://zenodo.org/record/8226039)

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Towards an Architecture of a Multi-purpose, User-Extendable Reference Human Brain Atlas

Cited by 10 publications

References 116 publications

On the definition, construction, and presentation of the human cerebral sulci: A morphology‐based approach

On the definition, construction, and presentation of the human cerebral sulci: A morphology‐based approach

Advances in Neuroanatomy through Brain Atlasing

Constructing Population-Specific Atlases from Whole Body MRI: Application to the UKBB

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