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.

1388Connections

0Hypotheses

1Analyses

50Outgoing

50Incoming

0Experiments

2Debates

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	13q12.3
Function	is a gene on chromosome 13q12.
Primary Expression	Ubiquitous; enriched in neurons, microglia, astrocytes
Molecular Weight	25 kDa
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	Aging, Als, Alzheimer, Anxiety-like behavior, cancer
Known Drugs/Compounds	Box-A, curcumin, Glycyrrhizic Acid, Omega-3 Polyunsaturated Fatty Acids, rapamycin, RAPAMYCIN
Interactions	ABCA1, ABCG1, ACHE, Actin, AD, Adiponectin
KG Connections	1388 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 (4)

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 (868)

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

Incoming (520)

Source	Relation	Type	Str
Trilobatin	targets	compound	0.95
Necrotic cells	produces	cell_type	0.90
Box-A	inhibits	drug	0.90
CNS Injury	upregulates	disease	0.90
CXCR7	binds	receptor	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
IL4	inhibits	protein	0.85
SIRT3/SOD2 Signaling Pathway	regulates	pathway	0.85
Glycyrrhizic Acid	inhibits	compound	0.85
Bacterial Infection	upregulates	disease	0.80
Viral Infection	upregulates	disease	0.80
Fungal Infection	upregulates	disease	0.80
HSYA	downregulates	compound	0.80
NF-ΚB	regulates	gene	0.80
OXIDATIVE STRESS	activates	gene	0.80
CYTOKINES	activates	gene	0.80
OXIDATIVE STRESS	therapeutic_target	gene	0.80
Omega-3 Polyunsaturated Fatty Acids	modulates	compound	0.75
Oxidative State	modulates	mechanism	0.75
Subcellular Localization	modulates	mechanism	0.75
DRP1	binds	gene	0.70
ATP	interacts_with	gene	0.70
AUTOPHAGY	interacts_with	gene	0.70
AUTOPHAGY	inhibits	gene	0.70
INFLAMMATION	biomarker_for	gene	0.70
GENES	biomarker_for	gene	0.70
C1Q	associated_with	gene	0.70
TNF	activates	gene	0.70
SIRT1	regulates	gene	0.70
APOPTOSIS	biomarker_for	gene	0.70
TLR4	activates	gene	0.70
APOPTOSIS	therapeutic_target	gene	0.70
INFLAMMATION	activates	gene	0.70
IL-6	biomarker_for	gene	0.70
INFLAMMATION	inhibits	gene	0.70
RAGE	expressed_in	gene	0.70
CANCER	therapeutic_target	gene	0.70
TNF-Α	activates	gene	0.70
AMBRA1	interacts_with	gene	0.70
IL-6	activates	gene	0.70
LCN2	activates	protein	0.70
CANCER	activates	gene	0.70
TREM2	associated_with	gene	0.70
NEURODEGENERATION	associated_with	gene	0.66
APOPTOSIS	associated_with	gene	0.66
PYROPTOSIS	degrades	phenotype	0.65
PARP1	inhibits	gene	0.65

Targeting Hypotheses (0)

Hypotheses where this entity is a therapeutic target

Hypothesis	Score	Disease	Analysis
No targeting hypotheses

Mentioning Analyses (1)

Scientific analyses that reference this entity

Does Alectinib truly bind C1q directly with high affinity, or is this an experim

molecular biology | 2026-04-17 | 10 hypotheses Top: 0.455

Experiments (0)

Experimental studies targeting or related to this entity

Experiment	Type	Disease	Score	Feasibility	Model	Status	Est. Cost
No experiments found

Related Papers (0)

Scientific publications cited in analyses involving this entity

Title & PMID	Authors	Journal	Year	Citations
No papers found

Debates (2)

Multi-agent debates referencing this entity

The fundamental premise remains unvalidated despite extensive mechanistic specul

closed · Rounds: 4 · Score: 1.00 · 2026-04-19

The fundamental premise remains unvalidated despite extensive mechanistic specul

closed · Rounds: 4 · Score: 0.50 · 2026-04-18

Related Research

Hypotheses and analyses mentioning HMGB1 in their description or question text

No additional research found

HMGB1

Understanding Entity Pages

Summary

Wiki Pages (4)

HMGB1 — High Mobility Group Box 1

HMGB1 Signaling in Neurodegeneration

High Mobility Group Box 1 (HMGB1) - Biomarker

HMGB1 Protein

Pathway Diagram

Outgoing (868)

Incoming (520)

Targeting Hypotheses (0)

Mentioning Analyses (1)

Does Alectinib truly bind C1q directly with high affinity, or is this an experim

Experiments (0)

Related Papers (0)

Debates (2)

The fundamental premise remains unvalidated despite extensive mechanistic specul

The fundamental premise remains unvalidated despite extensive mechanistic specul

Related Research