gene

CX3CR1

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about CX3CR1: its mechanistic relationships (Knowledge Graph edges), hypotheses targeting it, analyses mentioning it, and supporting scientific papers. The interactive graph below shows its immediate neighbors. All content is AI-synthesized from peer-reviewed literature.

1279Connections

2Hypotheses

8Analyses

50Outgoing

50Incoming

Summary

CX3CR1 is a gene implicated in neurodegeneration research. Key relationships include: activates, associated with, regulates. Associated with ALS, ALZHEIMER'S DISEASE, Aging. Connected to 552 entities in the SciDEX knowledge graph.

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🧬 Gene Info

Gene Symbol	CX3CR1
Full Name	CX3C Chemokine Receptor 1
Chromosome	3p21.31
Protein Type	Gpcr
Target Class	Gpcr
Function	GPCR antagonist modulating microglial activation and neuroinflammation
Mechanism of Action	GPCR antagonist modulating microglial activation and neuroinflammation
Primary Expression	Microglia, Monocytes, NK cells, T cells
Druggability	Low (0.44)
Clinical Stage	Phase II
Pathways	Complement, Immune Response, Neuroinflammatory, Oxidative Stress, Synaptic Plasticity
UniProt ID	P41597
NCBI Gene ID	1524
Ensembl ID	ENSG00000168329
OMIM	601470
GeneCards	CX3CR1
Human Protein Atlas	CX3CR1
Associated Diseases	ALS, Aging, Alzheimer, Alzheimer's Disease
Known Drugs/Compounds	Baicalein
Interactions	TREM2, APP, TNF, CD163, CD68, NRF2
SciDEX Target	View Target Profile (7 clinical trials)
SciDEX Hypotheses	Fractalkine Axis Amplification via CX3CR1 Positive Optogenetic Microglial Deactivation via Engineered
KG Connections	1272 knowledge graph edges
Databases	GeneCards HPA STRING

🔮 Predicted Structure: CX3CR1 — AlphaFold P49238 Click to expand

AI-predicted structure from AlphaFold | Powered by Mol*

Wiki Pages (21)

Knowledge base pages for this entity

Canonical Page

Pathway Diagram

flowchart TD
    CX3CR1(["CX3CR1"])
    CX3CL1(["CX3CL1"])
    FKN(["FKN"])
    Fractalkine(["Fractalkine"])
    Hematoma_Resolution("Hematoma Resolution")
    h_ba3a948a["h-ba3a948a"]
    h_782b40b1["h-782b40b1"]
    Als["Als"]
    Microglial_Inflammatory_Response("Microglial Inflammatory Response")
    Synaptic_Pruning("Synaptic Pruning")
    A_["Abeta"]
    Neurological_Function("Neurological Function")

    CX3CL1 -->|"binds"| CX3CR1
    FKN -->|"activates"| CX3CR1
    CX3CR1 -->|"binds"| Fractalkine
    CX3CR1 -->|"involved in"| Hematoma_Resolution
    h_ba3a948a -->|"therapeutic target"| CX3CR1
    h_782b40b1 -->|"therapeutic target"| CX3CR1
    h_ba3a948a -->|"targets gene"| CX3CR1
    h_782b40b1 -->|"targets gene"| CX3CR1
    CX3CR1 -.->|"inhibits"| Als
    CX3CR1 -.->|"inhibits"| Microglial_Inflammatory_Response
    CX3CR1 -->|"regulates"| Synaptic_Pruning
    CX3CR1 -->|"involved in"| Synaptic_Pruning
    CX3CR1 -->|"associated with"| A_
    CX3CR1 -->|"associated with"| Neurological_Function
    h_ba3a948a -->|"targets"| CX3CR1

    style CX3CR1 fill:#006494,stroke:#4fc3f7,stroke-width:3px,color:#e0e0e0

Outgoing (820)

Target	Relation	Type	Str
ds-db4a006ea647	provides_data_for	dataset	1.00
ds-f2c28aed24a7	provides_data_for	dataset	1.00
Favorable Survival	associated_with	phenotype	0.95
ACTIVITY-DEPENDENT SYNAPSE REMOVAL	regulates	biological_process	0.90
hematoma resolution	enhances	process	0.90
microglia	activates	cell_type	0.90
Microglial Inflammatory Response	inhibits	process	0.85
AΒ PHAGOCYTOSIS	regulates	biological_process	0.85
PPARΓ	modulates	protein	0.85
Lipid Droplet Accumulation	involved_in	process	0.85
microglial inflammatory response	suppresses	process	0.85
Als	inhibits	disease	0.85
Schizophrenia	biomarker_for	disease	0.85
neuroinflammation	activates	disease	0.80
neuroinflammation	regulates	disease	0.80
neurodegenerative disease	implicated_in	disease	0.80
Immune cell infiltration	regulates	process	0.80
microglia	associated_with	cell_type	0.80
microglia	inhibits	cell_type	0.80
microglia	expressed_in	cell_type	0.80
microglia	biomarker_for	cell_type	0.80
neurodegenerative diseases	implicated_in	disease	0.80
microglial_activation	controls	pathway	0.80
fractalkine_signaling	mediates	pathway	0.80
MICROGLIA	inhibits	cell_type	0.80
MICROGLIA	activates	cell_type	0.80
Inflammation	regulates	disease	0.75
Alzheimer	regulates	disease	0.75
Inflammation	activates	disease	0.75
Neuroinflammation	activates	disease	0.75
Aging	activates	disease	0.75
Alzheimer	activates	disease	0.75
Tumor	activates	disease	0.75
SYNAPSE	associated_with	gene	0.75
Cancer	inhibits	disease	0.75
Als	associated_with	disease	0.75
Aging	associated_with	disease	0.75
Als	interacts_with	disease	0.75
Carcinoma	activates	disease	0.75
Inflammation	associated_with	disease	0.75
Inflammation	inhibits	disease	0.75
Inflammation	implicated_in	disease	0.75
APP	activates	gene	0.70
TAU	exacerbates	protein	0.70
APOE	inhibits	gene	0.70
monocytes	promotes	cell_type	0.70
Complement	regulates	pathway	0.70
MICROGLIA	associated_with	gene	0.70
INFLAMMATION	associated_with	gene	0.70
CYTOKINES	associated_with	gene	0.70

Incoming (459)

Source	Relation	Type	Str
ALZHEIMER'S DISEASE	associated_with	disease	1.00
ds-db4a006ea647	data_in	dataset	1.00
ds-f2c28aed24a7	data_in	dataset	1.00
MICROGLIA	inhibits	gene	0.98
TNF	associated_with	gene	0.90
FRACTALKINE	activates	protein	0.90
h-ba3a948a	targets_gene	hypothesis	0.90
h-782b40b1	targets_gene	hypothesis	0.90
h-494861d2	targets_gene	hypothesis	0.90
MICROGLIA	associated_with	gene	0.82
h-ba3a948a	targets	hypothesis	0.80
h-782b40b1	targets	hypothesis	0.80
CX3CL1	engages	protein	0.80
HCRTR2	modulates_via_microglia	gene	0.80
AMYLOID	associated_with	gene	0.74
PARKINSON'S DISEASE	associated_with	disease	0.74
TNF	activates	gene	0.70
CCR2	associated_with	gene	0.70
ALZHEIMER	regulates	gene	0.70
ALZHEIMER	activates	gene	0.70
h-494861d2	targets	hypothesis	0.70
ALS	associated_with	gene	0.66
MICROGLIA	activates	gene	0.66
IL-6	associated_with	gene	0.66
NF-KB	associated_with	protein	0.66
APOE	associated_with	gene	0.65
CD33	associated_with	gene	0.65
CX3CL1	stabilizes	gene	0.65
ASTROCYTE	associated_with	gene	0.65
AMPK	associated_with	gene	0.65
ASTROCYTE	reduces	cell_type	0.65
NEUROINFLAMMATION	mediated_by	process	0.65
MICROGLIA	treats	cell_type	0.65
INFLAMMATION	exacerbates	phenotype	0.65
h-019c56c1	targets	hypothesis	0.65
ANXA1	therapeutic_target	gene	0.60
NBR1	therapeutic_target	gene	0.60
CD36	activates	gene	0.60
NRF2	activates	gene	0.60
C1Q	regulates	gene	0.60
OVERVIEW	regulates	gene	0.60
CXCR1	therapeutic_target	gene	0.60
OVERVIEW	expressed_in	gene	0.60
CX3CL1	therapeutic_target	gene	0.60
TNF	therapeutic_target	gene	0.60
APP	activates	gene	0.60
CD68	activates	gene	0.60
CD163	activates	gene	0.60
CX3CL1	inhibits	gene	0.60
CD47	regulates	gene	0.60

Targeting Hypotheses (2)

Hypotheses where this entity is a therapeutic target

Hypothesis	Score	Disease	Analysis
Fractalkine Axis Amplification via CX3CR1 Positive Allosteri	0.503	neurodegeneration	Synaptic pruning by microglia in early A
Optogenetic Microglial Deactivation via Engineered Inhibitor	0.384	neurodegeneration	Synaptic pruning by microglia in early A

Mentioning Analyses (8)

Scientific analyses that reference this entity

Related Papers (20)

Scientific publications cited in analyses involving this entity

Title & PMID	Authors	Journal	Year	Citations
Reducing microglial lipid load enhances β amyloid phagocytosis in an Alzheimer's [PMID:39908361]	Wu X, Miller JA, Lee BTK, Wang Y, Ruedl	Sci Adv	2025	1
Fractalkine Enhances Hematoma Resolution and Improves Neurological Function via [PMID:37465997]	Chen X, He X, Xu F, Xu N, Sharifi NH, Zh	Stroke	2023	1
Microglia-Mediated Neuroinflammation: A Potential Target for the Treatment of Ca [PMID:35642214]	Wang M, Pan W, Xu Y, Zhang J, Wan J, Jia	J Inflamm Res	2022	1
CX3CL1/CX3CR1 signaling targets for the treatment of neurodegenerative diseases. [PMID:34492237]	Subbarayan MS, Joly-Amado A, Bickford PC	Pharmacol Ther	2022	1
Microglia in neurodegeneration. [PMID:30258234]	Hickman S, Izzy S, Sen P, Morsett L, El	Nat Neurosci	2018	1
How neuroinflammation contributes to neurodegeneration. [PMID:27540165]	Ransohoff RM	Science	2016	1
Spatiotemporal dynamic regulation of the CX3CL1-CX3CR1 axis: A double-edged swor [PMID:41564496]	Liang J, Zhu W, Pan R, Wei S, Zhang S et	Cytokine Growth Factor Rev	2026	0
CD8(+) T(EMRA) cells: A double-edged sword in immunity and disease-Mechanisms an [PMID:41946125]	Ma J, Wu Y, Chen L, Zheng X	Int Immunopharmacol	2026	0
Aging effects on emotionality, cognition and brain mononuclear cells in Sprague- [PMID:41946716]	Djuretić J, Ivanović J, Jezdić K, Todoro	NPJ Aging	2026	0
Constitutive expression of CX3CR1-BAC-Cre introduces minimal off-target effects [PMID:41924777]	Mroue-Ruiz FH, Desai B, Garvin MM, Shehu	Biochemical and biophysical re	2026	0
Systems-level molecular and immunological evidence identifies Th17/Treg modulati [PMID:41788408]	["Li X", "Li X", "Chen S", "Wang L", "Xi	Frontiers in aging neuroscienc	2026	0
Multimodal tumor thermal therapy enhances antitumor immunity by expanding tumor- [PMID:41799205]	["Wang S", "Wang Y", "Zhang Y", "Zhang Z	Theranostics	2026	0
NIK-driven IL-23 production by myeloid cells is a key factor in the development [PMID:41758203]	Ramphal NS, Liu X, Palagi I, Jasser R, M	J Exp Med	2026	0
[Corrigendum] Influence of aspirin on the CX3CL1/CX3CR1 signaling pathway in acu [PMID:41930567]	Zhang Z, Yang W, Ying R, Shi Y, Jiang H	Int J Mol Med	2026	0
CX3CR1-T280M polymorphism and end-stage renal disease development in chronic kid [PMID:41932952]	Gatti M, Baragetti I, Baragetti A, Buzzi	Scientific reports	2026	0
Expression of MS4A4A on synovial infiltrating macrophages is a hallmark of rheum [PMID:41955527]	Asakura H, Matsueda Y, Ikeda K, Kyoda S,	Immunol Med	2026	0
Role of Cannabinoid Receptor Type 2 in Acute Behavioral Responses to Graft Versu [PMID:41958320]	Moe A, Liphart HA, Heaster K, Romero J,	Cannabis Cannabinoid Res	2026	0
SYK-dependent lipid handling in monocyte-derived macrophages governs functional [PMID:41831796]	["Zhao Y", "Hu H", "Wang J", "Hu Y", "Ya	Brain research bulletin	2026	0
Microglial Lag3 Drives α-Synuclein-induced Neurotoxic Activated (A1) Astrocytes [PMID:41542562]	["Yang X", "Kumbhar R", "Seo B", "Ha S",	bioRxiv : the preprint server	2026	0
Conserved ductular reaction mechanisms in biliary atresia and PSC derived from s [PMID:41903685]	Schofield A, Kamath BM, MacParland SA, T	Cellular and molecular gastroe	2026	0

CX3CR1

Understanding Entity Pages

Summary

Wiki Pages (21)

CX3CR1 — CX3C Chemokine Receptor 1

Novel Therapy Index

Microglia CD8+ T Cell Recruitment -- Supplementary WW Content

Therapeutics

neuroinflammation

Microglial Cells — Cell Type Hierarchy

Pathway Diagram

Outgoing (820)

Incoming (459)

Targeting Hypotheses (2)

Mentioning Analyses (8)

Neuroinflammation and microglial priming in early Alzheimer's Disease

Tau propagation mechanisms and therapeutic interception points

Cell type vulnerability in Alzheimers Disease (SEA-AD transcriptomic data)

Cell type vulnerability in Alzheimer's Disease (SEA-AD data - v2)

Sleep disruption as cause and consequence of neurodegeneration

Synaptic pruning by microglia in early AD

Senolytic therapy for age-related neurodegeneration

Microglia-astrocyte crosstalk amplification loops in neurodegeneration

Related Papers (20)

CX3CR1

Understanding Entity Pages

Summary

Wiki Pages (21)

CX3CR1 — CX3C Chemokine Receptor 1

Novel Therapy Index

Microglia CD8+ T Cell Recruitment -- Supplementary WW Content

Therapeutics

neuroinflammation

Microglial Cells — Cell Type Hierarchy

TREM2 Mechanism Hub

Neuroinflammation Across AD, PD, ALS, FTD, and HD

TREM2→Microglial Dysfunction→Alzheimer's Disease Causal Chain

cynata-therapeutics

Neuroinflammation in Amyotrophic Lateral Sclerosis

JAK-STAT Signaling Pathway in Neurodegeneration

gpcr-signaling

microglial-synaptic-pruning-dysregulation

TREM2 in Parkinson's Disease — Cross-Disease Therapeutic Opportunity

Microglia Activation Mechanism

CD200R1 Gene

Iduna Therapeutics

Neuroinflammation Pathway

Neuroinflammation in Alzheimer's Disease

Muna Therapeutics

Pathway Diagram

Outgoing (820)

Incoming (459)

Targeting Hypotheses (2)

Mentioning Analyses (8)

Neuroinflammation and microglial priming in early Alzheimer's Disease

Tau propagation mechanisms and therapeutic interception points

Cell type vulnerability in Alzheimers Disease (SEA-AD transcriptomic data)

Cell type vulnerability in Alzheimer's Disease (SEA-AD data - v2)

Sleep disruption as cause and consequence of neurodegeneration

Synaptic pruning by microglia in early AD

Senolytic therapy for age-related neurodegeneration

Microglia-astrocyte crosstalk amplification loops in neurodegeneration

Related Papers (20)