gene

HMGB1

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about HMGB1: 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

0Hypotheses

0Analyses

50Outgoing

50Incoming

Summary

HMGB1 is a gene implicated in neurodegeneration research. Key relationships include: interacts with, activates, regulates. Associated with ALS, ALZHEIMER, ALZHEIMER'S. Connected to 503 entities in the SciDEX knowledge graph.

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🧬 Gene Info

Gene Symbol	HMGB1
Full Name	High Mobility Group Box 1
Chromosome	13q12
Function	is a gene on chromosome 13q12.
Primary Expression	Ubiquitous; enriched in neurons, microglia, astrocytes
Molecular Weight	~25 kDa (215 amino acids)
Amino Acids	215 aa
Exons	5
Pathways	Adaptive Immunity, Akt, Autophagy Machinery, Ferroptosis, Mapk
UniProt ID	P09429
NCBI Gene ID	3146
Ensembl ID	ENSG00000189403
OMIM	163905
GeneCards	HMGB1
Human Protein Atlas	HMGB1
Associated Diseases	ALS, Aging, Alzheimer, Anxiety-like behavior, CANCER
Known Drugs/Compounds	RAPAMYCIN, Trilobatin, curcumin, resveratrol, Omega-3 Polyunsaturated Fatty Acids, Box-A
Interactions	EGF, MLST8, RICTOR, MTOR, PIK3C3, EGFR
KG Connections	1279 knowledge graph edges
Databases	GeneCards HPA STRING

🔮 Predicted Structure: HMGB1 — AlphaFold P09429 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
    HMGB1(["HMGB1"])
    Inflammation["Inflammation"]
    Trilobatin["Trilobatin"]
    Apoptosis["Apoptosis"]
    INFLAMMATION(["INFLAMMATION"])
    Als["Als"]
    SIRT3_SOD2_Signaling_Pathway["SIRT3/SOD2 Signaling Pathway"]
    RAGE(["RAGE"])
    Cognitive_Impairment("Cognitive Impairment")
    Oxidative_Stress["Oxidative Stress"]
    Immune_Response["Immune Response"]
    Nf__b["Nf-Kappab"]
    NF__B(["NF-KappaB"])
    OXIDATIVE_STRESS(["OXIDATIVE STRESS"])

    HMGB1 -->|"therapeutic target"| Inflammation
    Trilobatin -->|"targets"| HMGB1
    HMGB1 -->|"activates"| Apoptosis
    INFLAMMATION -->|"therapeutic target"| HMGB1
    HMGB1 -->|"activates"| Als
    HMGB1 -.->|"inhibits"| Inflammation
    SIRT3_SOD2_Signaling_Pathway -->|"regulates"| HMGB1
    HMGB1 -->|"activates"| RAGE
    HMGB1 -->|"contributes to"| Cognitive_Impairment
    HMGB1 -->|"activates"| Oxidative_Stress
    HMGB1 -->|"activates"| Immune_Response
    HMGB1 -->|"regulates"| Nf__b
    HMGB1 -->|"therapeutic target"| Oxidative_Stress
    NF__B -->|"regulates"| HMGB1
    OXIDATIVE_STRESS -->|"activates"| HMGB1

    style HMGB1 fill:#006494,stroke:#4fc3f7,stroke-width:3px,color:#e0e0e0

Outgoing (813)

Target	Relation	Type	Str
Inflammation	therapeutic_target	disease	1.00
Cognitive Deficits	biomarker_for	phenotype	0.95
Damage-Associated Molecular Patterns	component_of	mechanism	0.95
Neuroinflammatory Priming	regulates	process	0.95
Redox State	associated_with	biomarker	0.95
Autophagy	regulates	process	0.95
Apoptosis	regulates	process	0.95
Neuroinflammation	causes	process	0.95
Innate Immune Activation	activates	process	0.95
ALPK1	interacts_with	gene	0.95
Spinal cord injury	associated_with	disease	0.92
Cancer	involved_in	disease	0.92
Tumorigenesis	involved_in	process	0.90
Microglial Activation	activates	process	0.90
Inflammatory Cytokine Release	associated_with	process	0.90
Sterile Inflammation	associated_with	process	0.90
Cognitive decline	causes	disease	0.90
Microglial priming	mediates	process	0.90
Seizures	involved_in	phenotype	0.90
PATTERN RECOGNITION RECEPTORS	interacts_with	receptor	0.90
Neuroinflammation	mediates	process	0.90
Epilepsy	biomarker_for	disease	0.90
ALPK1	upregulates	gene	0.90
Apoptosis	activates	pathway	0.90
Tumorigenesis	mediates	process	0.88
Apoptosis Pathway	regulates	pathway	0.88
Macrophage neurotoxic phenotype	associated_with	phenotype	0.88
Autophagy Machinery	regulates	pathway	0.87
Post-SCI neuroinflammation	exacerbates	process	0.87
Caspase-Dependent Apoptosis	modulates	pathway	0.85
Cancer Therapy	involved_in	process	0.85
M1 Microglial Polarization	activates	process	0.85
Neuronal Damage	contributes_to	phenotype	0.85
Major Depressive Disorder	biomarker_for	disease	0.85
Inflammatory Pathway Genes	upregulates	pathway	0.85
neuroinflammation	mediates	process	0.85
Brain Injury	contributes_to	disease	0.85
Als	activates	disease	0.85
Inflammation	inhibits	disease	0.85
Alzheimer's Disease	involved_in	disease	0.85
Cellular Homeostasis	contributes_to	process	0.83
Anxiety-like behavior	associated_with	phenotype	0.82
RAGE	activates	protein	0.80
Oxidative State	associated_with	phenotype	0.80
Biomarker	biomarker_for	biomarker	0.80
Secondary CNS Damage	exacerbates	phenotype	0.80
neuroinflammation	activates	disease	0.80
Cognitive Impairment	contributes_to	phenotype	0.80
oxidative stress response	participates_in	pathway	0.80
Neuroinflammation	promotes	process	0.80

Incoming (466)

Source	Relation	Type	Str
Trilobatin	targets	compound	0.95
CNS Injury	upregulates	disease	0.90
CXCR7	binds	receptor	0.90
Necrotic cells	produces	cell_type	0.90
Box-A	inhibits	drug	0.90
h-03e31e80	targets_gene	hypothesis	0.90
INFLAMMATION	therapeutic_target	gene	0.90
Macrophages	produces	cell_type	0.89
Mycobacterium vaccae	downregulates	compound	0.88
SIRT3/SOD2 Signaling Pathway	regulates	pathway	0.85
IL4	inhibits	protein	0.85
Glycyrrhizic Acid	inhibits	compound	0.85
Fungal Infection	upregulates	disease	0.80
HSYA	downregulates	compound	0.80
Bacterial Infection	upregulates	disease	0.80
Viral Infection	upregulates	disease	0.80
NF-ΚB	regulates	gene	0.80
OXIDATIVE STRESS	activates	gene	0.80
OXIDATIVE STRESS	therapeutic_target	gene	0.80
CYTOKINES	activates	gene	0.80
Subcellular Localization	modulates	mechanism	0.75
Oxidative State	modulates	mechanism	0.75
Omega-3 Polyunsaturated Fatty Acids	modulates	compound	0.75
AMBRA1	interacts_with	gene	0.70
TNF	activates	gene	0.70
SIRT1	regulates	gene	0.70
TLR4	activates	gene	0.70
RAGE	expressed_in	gene	0.70
TREM2	associated_with	gene	0.70
GENES	biomarker_for	gene	0.70
LCN2	activates	protein	0.70
IL-6	activates	gene	0.70
TNF-Α	activates	gene	0.70
AUTOPHAGY	inhibits	gene	0.70
CANCER	activates	gene	0.70
CANCER	therapeutic_target	gene	0.70
APOPTOSIS	therapeutic_target	gene	0.70
ATP	interacts_with	gene	0.70
AUTOPHAGY	interacts_with	gene	0.70
APOPTOSIS	biomarker_for	gene	0.70
INFLAMMATION	biomarker_for	gene	0.70
IL-6	biomarker_for	gene	0.70
INFLAMMATION	inhibits	gene	0.70
INFLAMMATION	activates	gene	0.70
APOPTOSIS	associated_with	gene	0.66
NEURODEGENERATION	associated_with	gene	0.66
S100B	inhibits	gene	0.65
TREM2	causes	gene	0.65
PARP1	inhibits	gene	0.65
CANCER	treats	disease	0.65

Targeting Hypotheses (0)

Hypotheses where this entity is a therapeutic target

Hypothesis	Score	Disease	Analysis
No targeting hypotheses

Mentioning Analyses (0)

Scientific analyses that reference this entity

No analyses mention this entity

Related Papers (0)

Scientific publications cited in analyses involving this entity

Title & PMID	Authors	Journal	Year	Citations
No papers found

HMGB1

Understanding Entity Pages

Summary

Wiki Pages (21)

High Mobility Group Box 1 (HMGB1) - Biomarker

neuroinflammation

blood-brain-barrier

Necroptotic Neurons

Amyloid-beta Cellular Uptake Pathway

Necroptosis Pathway in Neurodegeneration

Receptor-Mediated Transcytosis (RMT)

Neuroinflammation Microglia

Regulated Necrosis Hypothesis in Parkinson's Disease

Neuroinflammation Pathway

Astrocyte-Mediated Neuroinflammation

nlrp3-inflammasome-activated-microglia

ASC (PYCARD)

Cell Death Pathways in 4R-Tauopathies

Glutamate Excitotoxicity Pathway in Neurodegeneration

AGER/RAGE Protein

S100 Protein Signaling Pathway in Neurodegeneration

Necroptosis in Alzheimer's Disease