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5		-= //A new tridimensional diagnostic framework for CNS diseases// =
	5	+= //A new tridimensional diagnostic framework for neurodegenerative diseases// =
6	6
7		-This project is focused on developing a novel nosological and diagnostic framework for CNS diseases by using advanced AI techniques and integrating data from neuroimaging, biomarkers, and biomedical ontologies.
	7	+This project is focused on developing a novel nosological and diagnostic framework for neurodegenerative diseases by using advanced AI techniques and integrating data from neuroimaging, biomarkers, and biomedical ontologies.
8	8	We aim to create a structured, interpretable, and scalable diagnostic tool.
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16	16	= What is this about and what can I find here? =
17	17
18		-= **Overview** =
	18	+== **Overview** ==
19	19
	20	+The //Tridimensional Diagnostic Framework// redefines how neurodegenerative diseases (NDD) are classified by focusing on:
20	20
21		-The classification and diagnosis of **central nervous system (CNS) diseases** have long been constrained by **traditional phenotype-based approaches**, which often fail to capture the **complex pathophysiological mechanisms, molecular biomarkers, and neuroanatomical changes** that drive disease progression. **Neurodegenerative and psychiatric disorders**, for example, exhibit significant **clinical overlap, co-pathology, and heterogeneity**, making current diagnostic models insufficient.
22		-
23		-This project proposes a **new diagnostic framework**—one that **shifts from symptom-based classifications** to an **etiology-driven, tridimensional system**. By integrating **genetics, proteomics, neuroimaging, computational modeling, and AI-powered annotations**, this approach aims to provide a **more precise, scalable, and biologically grounded method for diagnosing and managing CNS diseases**.
24		-
25		-The **AI-powered annotation system** plays a critical role by **structuring, interpreting, and tracking multi-modal data**, ensuring **real-time disease progression analysis, clinician decision support, and personalized treatment pathways**.
26		-
27		-=== **Project Aim** ===
28		-
29		-The project aims to develop a **tridimensional diagnostic framework** with an **AI-powered annotation system**, integrating **etiology, molecular biomarkers, and neuroanatomoclinical correlations** for **precise, standardized, and scalable CNS disease diagnostics**.
30		-
31		-The //Tridimensional Diagnostic Framework// redefines CNS diseases can be classified and diagnosed by focusing on:
32		-
33	33	* **Axis 1**: Etiology (genetic or other causes of diseases).
34	34	* **Axis 2**: Molecular Markers (biomarkers).
35	35	* **Axis 3**: Neuroanatomoclinical correlations (linking clinical symptoms to structural changes in the nervous system).
36	36
	26	+[[Neurodegenerative diseases can be studied and classified in a tridimensional scheme with three axes: anatomic–clinical, molecular, and etiologic. CSF, cerebrospinal fluid; FDG, fluorodeoxyglucose; MRI, magnetic resonance imaging; PET, positron emission tomography.>>image:tridimensional.png||alt="tridimensional view of neurodegenerative diseases"]]
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37	37	This methodology enables:
38	38
39	39	* Greater precision in diagnosis.
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40	40	* Integration of incomplete datasets using AI-driven probabilistic modeling.
41	41	* Stratification of patients for personalized treatment.
42	42
43		-== **The Role of AI-Powered Annotation** ==
	35	+== **Diagnostic Axes** ==
44	44
45		-To enhance **standardization, interpretability, and clinical application**, the framework integrates **an AI-powered annotation system**, which:
46		-
47		-* **Assigns structured metadata tags** to diagnostic features.
48		-* **Provides real-time contextual explanations** for AI-based classifications.
49		-* **Tracks longitudinal disease progression** using timestamped AI annotations.
50		-* **Improves AI model transparency** through interpretability tools (e.g., SHAP analysis).
51		-* **Facilitates decision-making for clinicians** by linking annotations to standardized biomedical ontologies (SNOMED, HPO).
52		-
53		-== **The case of neurodegenerative diseases** ==
54		-
55		-There have been described these 3 diagnostic axes:
56		-
57		-[[Neurodegenerative diseases can be studied and classified in a tridimensional scheme with three axes: anatomic–clinical, molecular, and etiologic. CSF, cerebrospinal fluid; FDG, fluorodeoxyglucose; MRI, magnetic resonance imaging; PET, positron emission tomography.>>image:tridimensional.png||alt="tridimensional view of neurodegenerative diseases"]]
58		-
59	59	* (((
60	60	**Axis 1: Etiology**
61	61
62	62	* //Description//: Focuses on genetic and sporadic causes, identifying risk factors and potential triggers.
63	63	* //Examples//: APOE ε4 as a genetic risk factor, or cardiovascular health affecting NDD progression.
64		-* //Tests//: Genetic testing, lifestyle, and cardiovascular screening.
	42	+* //Tests//: Genetic testing, lifestyle and cardiovascular screening.
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66	66	* (((
67	67	**Axis 2: Molecular Markers**
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85	85	* **Research**: By stratifying patients, reduces cohort heterogeneity in clinical trials.
86	86	* **Clinical Practice**: Provides dynamic diagnostic annotations with timestamps for longitudinal tracking.
87	87
	66	+== Who has access? ==
	67	+
	68	+We welcome contributions from the global community. Let’s build the future of neurological diagnostics together!
	69	+
88	88	== How to Contribute ==
89	89
90	90	* Access the `/docs` folder for guidelines.
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96	96	* Develop interpretable AI models for diagnosis and progression tracking.
97	97	* Integrate data from Human Phenotype Ontology (HPO), Gene Ontology (GO), and other biomedical resources.
98	98	* Foster collaboration among neuroscientists, AI researchers, and clinicians.
99		-
100		-== Who has access? ==
101		-
102		-We welcome contributions from the global community. Let’s build the future of neurological diagnostics together!
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112	112	{{box title="**Contents**"}}
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121	121	* `/outputs`: Generated models, visualizations, and reports.
122	122	* [[Methodology>>url:https://wiki.ebrains.eu/bin/view/Collabs/neurodiagnoses/Methodology/]]
123	123	* [[Results>>url:https://wiki.ebrains.eu/bin/view/Collabs/neurodiagnoses/Results/]]
124		-* [[to-do-list>>to-do-list]]
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