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5		-= //A new tridimensional diagnostic framework for CNS conditions// =
	5	+= //A new tridimensional diagnostic framework for CNS diseases// =
6	6
7		-This project is focused on developing a novel nosological and diagnostic framework for neurological 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 CNS 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 (NDDs) are classified by focusing on:
21	21
22		-* **Axis 1**: Etiology (genetic/sporadic and environmental factors).
23		-* **Axis 2**: Molecular Markers (biomarkers and proteinopathies).
	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	+* **Axis 1**: Etiology (genetic or other causes of diseases).
	34	+* **Axis 2**: Molecular Markers (biomarkers).
24	24	* **Axis 3**: Neuroanatomoclinical correlations (linking clinical symptoms to structural changes in the nervous system).
25	25
26	26	This methodology enables:
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29	29	* Integration of incomplete datasets using AI-driven probabilistic modeling.
30	30	* Stratification of patients for personalized treatment.
31	31
32		-== **Diagnostic Axes** ==
	43	+== **The Role of AI-Powered Annotation** ==
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	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	+
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35	35	**Axis 1: Etiology**
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37	37	* //Description//: Focuses on genetic and sporadic causes, identifying risk factors and potential triggers.
38	38	* //Examples//: APOE ε4 as a genetic risk factor, or cardiovascular health affecting NDD progression.
39		-* //Tests//: Genetic testing, lifestyle and cardiovascular screening.
	64	+* //Tests//: Genetic testing, lifestyle, and cardiovascular screening.
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41	41	* (((
42	42	**Axis 2: Molecular Markers**
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60	60	* **Research**: By stratifying patients, reduces cohort heterogeneity in clinical trials.
61	61	* **Clinical Practice**: Provides dynamic diagnostic annotations with timestamps for longitudinal tracking.
62	62
63		-== Who has access? ==
64		-
65		-We welcome contributions from the global community. Let’s build the future of neurological diagnostics together!
66		-
67	67	== How to Contribute ==
68	68
69	69	* Access the `/docs` folder for guidelines.
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75	75	* Develop interpretable AI models for diagnosis and progression tracking.
76	76	* Integrate data from Human Phenotype Ontology (HPO), Gene Ontology (GO), and other biomedical resources.
77	77	* 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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83	83	{{box title="**Contents**"}}
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90	90	* `/code`: Machine learning pipelines and scripts.
91	91	* `/data`: Sample datasets for testing.
92	92	* `/outputs`: Generated models, visualizations, and reports.
	122	+* [[Methodology>>url:https://wiki.ebrains.eu/bin/view/Collabs/neurodiagnoses/Methodology/]]
	123	+* [[Notebooks>>Notebooks]]
	124	+* [[Results>>url:https://wiki.ebrains.eu/bin/view/Collabs/neurodiagnoses/Results/]]
	125	+* [[to-do-list>>to-do-list]]
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tridimensional.png

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	1	+XWiki.manuelmenendez

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