entity

ARK

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about ARK: 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.

3Connections
30Hypotheses
2Analyses
2Outgoing
1Incoming
9Experiments
2Debates

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Wiki Pages (20)

Knowledge base pages for this entity

UCHL1 (PARK5) Pathway in Parkinson's Disease

mechanism · 3394 words

PARK7 — Parkinsonism Associated Deglycase (DJ-1)

gene · 3060 words

FBXO7 Protein (PARK15)

protein · 2779 words

ATP13A2 (PARK9) Pathway in Parkinson's Disease

mechanism · 2534 words

PARK2 - Parkin

gene · 2524 words

Outgoing (2)

TargetRelationTypeStr
benchmark_ot_ad_answer_key:ARKdata_indataset_row0.00
DRONCactivatesprotein0.80

Incoming (1)

SourceRelationTypeStr
benchmark_ot_ad_answer_key:ARKdata_indataset_row0.00

Targeting Hypotheses (30)

Hypotheses where this entity is a therapeutic target

HypothesisScoreDiseaseAnalysis
Ketone Utilization Index as Metabolic Flexibility Biomarker 0.829 translational-neuroscience Which metabolic biomarkers can distingui
p16^INK4a-CCF Axis as Senolytic Timing Biomarker 0.805 molecular-biology What is the optimal therapeutic window t
CSF sTREM2 as Pharmacodynamic Biomarker for Therapeutic Wind 0.801 neuroimmunology TREM2 in Alzheimer's Disease: Mechanisms
PINK1/Parkin mitophagy failure across PD, AD, and ALS 0.796 multi Cross-disease neurodegeneration mechanis
LRRK2 G2019S Kinase Inhibition for Parkinson's Disease 0.795 neurodegeneration Test
NMN Supplementation Restores SIRT1/p66Shc/FOXO3 Epigenetic A 0.790 neurodegeneration epigenetic reprogramming aging neurons
Integrated Biomarker Panel for Therapeutic Window Identifica 0.784 neurodegeneration What are the precise temporal dynamics o
PINK1/Parkin–TREM2 Axis: Convergent Mitophagy Failure Unifie 0.780 neurodegeneration -
GBA1/GCase restoration to reduce alpha-synuclein pathology i 0.760 neurodegeneration Test
STMN2 Cryptic Exon Inclusion is the Earliest Loss-of-Functio 0.760 als Causal Sequence of TDP-43 Nuclear Cleara
sTREM2 as Biomarker of Cystatin-C Therapeutic Efficacy 0.757 neurodegeneration Does the cancer-cystatin-C-TREM2 pathway
GBA1-Deficiency Disrupts Mitochondrial- Lysosomal Contact Si 0.747 neurodegeneration -
LAMP2A-Mediated Autophagy Enhancement Blocks Alpha-Synuclein 0.745 neurodegeneration Test
SIRT3-Mediated Mitochondrial Deacetylation Failure with PINK 0.738 alzheimers Cell type vulnerability in Alzheimers Di
Stage-Specific TREM2 Biomarker-Guided Switching — Agonist in 0.735 alzheimers TREM2 agonism vs antagonism in DAM micro
TDP-43 condensation thermodynamics as a therapeutic target a 0.724 neuroscience How can subcellular compartmentalization
CSF YKL-40 as a Priming-Specific Chitinase Marker 0.723 biomarkers What biomarkers can reliably detect micr
NLRP3 Inflammasome Inhibition for Neuroprotection in Parkins 0.720 neurodegeneration Test
Pharmacologic activation of GBA1 to reduce alpha-synuclein b 0.720 neurodegeneration Test
LRRK2 kinase inhibition to normalize lysosomal trafficking i 0.710 neurodegeneration Test
Creatine Kinase System Capacity as Neural Energy Reserve Bio 0.707 translational-neuroscience Which metabolic biomarkers can distingui
CSF/Plasma AQP4 Polarization Index as a Novel Biomarker of A 0.705 - What blood-brain barrier permeability ch
Pericyte-targeted senolysis or senomorphic therapy will bene 0.700 neurodegeneration Does pericyte senescence drive BBB break
mTORC1 Reactivation as Autophagy-Senescence Divergence Point 0.682 molecular-biology What is the optimal therapeutic window t
Dasatinib plus Quercetin Senolytic Clearance of p16Ink4a-Hig 0.680 neurodegeneration -
Dynamic Lactate-Pyruvate Ratio as Therapeutic Stratification 0.677 translational-neuroscience Which metabolic biomarkers can distingui
OPTN/TBK1 mutations create selective vulnerability by blocki 0.670 neurodegeneration What are the neuron-specific effects of
Mitophagy and NAD pathway enhancement in sporadic Parkinson' 0.670 neurodegeneration Test
Pericyte-First Sequential Biomarker Cascade — Soluble PDGFR- 0.662 - Blood-brain barrier permeability changes
Alpha-synuclein phosphorylation-dominated LLPS hijacks synap 0.657 parkinsons -

Mentioning Analyses (2)

Scientific analyses that reference this entity

Do PINK1/PARKIN pathway enhancements rescue excitatory neuron vulnerability or c

neurodegeneration | 2026-04-11 | 0 hypotheses

Do PINK1/PARKIN pathway enhancements rescue excitatory neuron vulnerability or e

neurodegeneration | 2026-04-11 | 0 hypotheses

Experiments (9)

Experimental studies targeting or related to this entity

ExperimentTypeDiseaseScoreFeasibilityModelStatusEst. Cost
AECII-specific HMGCS2 overexpression in mouse pulmonary fibrosis validation idiopathic pulmonary fibrosis 0.950 0.00 C57BL/6 mice with AECII-specif proposed N/A
Ketogenic diet fat threshold analysis in wild-type mice validation metabolic disease 0.900 0.00 C57BL/6J wild-type mice proposed N/A
HMGCS2 gain-of-function in AECII lipid metabolism regulation exploratory idiopathic pulmonary fibrosis 0.900 0.00 human AECIIs proposed N/A
Ketogenic diet efficacy in diet-induced obese mice validation obesity, metabolic disease 0.900 0.00 C57BL/6J diet-induced obese mi proposed N/A
Autophagy receptor identification for stress granule elimination exploratory neurodegenerative diseases 0.900 0.00 cultured cells under arsenite proposed N/A
Epigenetic clocks association with brain aging patterns in older women exploratory cognitive impairment and demen 0.900 0.00 human patients proposed N/A
Chi3l1 deletion effects on baseline glial activation in mice validation baseline neuroinflammation 0.900 0.00 Chi3l1 knockout mice proposed N/A
Microarray and single-cell RNA analysis of lipid metabolism genes exploratory idiopathic pulmonary fibrosis 0.850 0.00 human patients, mouse models proposed N/A
CHI3L1 variant association with AD progression in human patients exploratory Alzheimer's disease 0.850 0.00 human patients proposed N/A

Related Papers (20)

Scientific publications cited in analyses involving this entity

Title & PMIDAuthorsJournalYearCitations
TDP-43 Triggers Mitochondrial DNA Release via mPTP to Activate cGAS/STING in ALS [PMID:33031745] Yu CH, Davidson S, Harapas CR, Hilton JB Cell 2020 2
Monocyte LOXHD1 and RHOB Expression Predictive of Progressive Systemic Sclerosis [PMID:40771159] Padilla CM, Lafyatis R, Gibson KF, Morse Arthritis Care Res (Hoboken) 2026 0
Obstructive sleep apnea, biomarker profiles, and clinical progression in Parkins [PMID:41499940] Zhu S, An D, Liu X Sleep Med 2026 0
SuPAR levels are increased in sera of euthymic patients with bipolar disorder an [PMID:41605346] Kök Kendirlioğlu B, Çörekli Kaymakçı E, J Affect Disord 2026 0
Chitinase-like Proteins YKL-40 and YKL-39 in Colorectal Cancer. [PMID:41677627] Ivanova T, Kazakova M, Dikov D, Dzhambov Cells 2026 0
Correction: CHI3L1: An Emerging Player in Neuroinflammation and Neurodegeneratio [PMID:41699333] Mushtaq Umar; Seh Bilal Ahmad; Khanday F Molecular Neurobiology 2026 0
UNC93B1 promotes pancreatic cancer progression through modulation of cGAS-STING [PMID:41716413] Yang H, Li Y, Su J, Zhang H, Zhu W et al Front Immunol 2026 0
Association of Alzheimer's disease progression with YKL40 levels in peripheral b [PMID:41725729] Yang Q, Wang R, Pei J, Fu Q, Zhan Y et a Front Neurol 2026 0
Constitutive neuronal expression and disease-associated upregulation of chitinas [PMID:41762671] Gaur N, Angerer C, Gunes ZI, Ancau M, Wa Brain 2026 0
Plasma CHI3L1 as a marker of cognitive and structural brain changes in radiologi [PMID:41953284] Schneider R, Brand-Arzamendi K, Lim TR, BMJ Neurol Open 2026 0
Enhancing TREM2 expression activates microglia and modestly mitigates tau pathol [PMID:40122810] ["Chen Kai", "Li Fuyao", "Zhang Shuwen", Journal of neuroinflammation 2025 0
Isoginkgetin antagonizes ALS pathologies in its animal and patient iPSC models v [PMID:41094045] Li A, Huang S, Cao SQ, Lin J, Zhao L, Yu EMBO molecular medicine 2025 0
Enhancing TREM2 expression activates microglia and modestly mitigates tau pathol [PMID:40122810] ["Chen Kai", "Li Fuyao", "Zhang Shuwen", Journal of neuroinflammation 2025 0
Neurodegeneration and demyelination in multiple sclerosis. [PMID:38889714] Garton T, Gadani SP, Gill AJ, Calabresi Neuron 2024 0
STING orchestrates the neuronal inflammatory stress response in multiple scleros [PMID:38878778] Woo MS, Mayer C, Binkle-Ladisch L, Sonne Cell 2024 0
Air pollution, glymphatic impairment, and Alzheimer's disease. [PMID:37777345] Hussain R, Graham U, Elder A, Nedergaard Trends in neurosciences 2023 0
Roles of neuropathology-associated reactive astrocytes: a systematic review. [PMID:36915214] Lawrence JM, Schardien K, Wigdahl B, Non Acta neuropathologica communic 2023 0
Gasdermin-E mediates mitochondrial damage in axons and neurodegeneration. [PMID:36917977] Neel DV, Basu H, Gunner G, Bergstresser Neuron 2023 0
TDP-43 Triggers Mitochondrial DNA Release via mPTP to Activate cGAS/STING in ALS [PMID:33031745] Yu CH, Davidson S, Harapas CR, Hilton JB Cell 2020 0
Neurodegeneration and Inflammation-An Interesting Interplay in Parkinson's Disea [PMID:33182554] Marogianni C, Sokratous M, Dardiotis E, International journal of molec 2020 0

Debates (2)

Multi-agent debates referencing this entity

The debate revealed a critical gap: while PINK1/PARKIN deficiency correlates wit

closed · Rounds: 4 · Score: 0.50 · 2026-04-20

The debate revealed a critical gap: while excitatory neurons show mitochondrial

closed · Rounds: 4 · Score: 0.50 · 2026-04-20

Related Research

Hypotheses and analyses mentioning ARK in their description or question text

NMN Supplementation Restores SIRT1/p66Shc/FOXO3 Epigenetic Axis and Dopaminergic

Score: 0.790 · neurodegeneration · 2026-04-22

## Mechanistic Overview NMN Supplementation Restores SIRT1/p66Shc/FOXO3 Epigenetic Axis and Dopaminergic Neuron Survival

Integrated Biomarker Panel for Therapeutic Window Identification

Score: 0.784 · neurodegeneration · 2026-04-15

## Mechanistic Overview Integrated Biomarker Panel for Therapeutic Window Identification starts from the claim that modu

GBA1/GCase restoration to reduce alpha-synuclein pathology in Parkinson's diseas

Score: 0.760 · neurodegeneration · 2026-04-29

Heterozygous GBA1 loss of function reduces beta-glucocerebrosidase activity, disrupts lysosomal lipid handling, and prom

STMN2 Cryptic Exon Inclusion is the Earliest Loss-of-Function Marker of TDP-43 N

Score: 0.760 · als · 2026-04-27

Loss of nuclear TDP-43 in ALS motor neurons first manifests as aberrant inclusion of the STMN2 cryptic exon 2a, producin

sTREM2 as Biomarker of Cystatin-C Therapeutic Efficacy

Score: 0.757 · neurodegeneration · 2026-04-17

## Mechanistic Overview sTREM2 as Biomarker of Cystatin-C Therapeutic Efficacy starts from the claim that modulating not

LAMP2A-Mediated Autophagy Enhancement Blocks Alpha-Synuclein Propagation in Park

Score: 0.745 · neurodegeneration · 2026-05-10

AAV9-mediated overexpression of LAMP2A enhances chaperone-mediated autophagy to selectively degrade pathological alpha-s

SIRT3-Mediated Mitochondrial Deacetylation Failure with PINK1/Parkin Mitophagy D

Score: 0.738 · alzheimers · 2026-04-02

## Mechanistic Overview SIRT3-Mediated Mitochondrial Deacetylation Failure with PINK1/Parkin Mitophagy Dysfunction start

Stage-Specific TREM2 Biomarker-Guided Switching — Agonist in Amyloid Phase, Anta

Score: 0.735 · alzheimers · 2026-04-04

## Mechanistic Overview Stage-Specific TREM2 Biomarker-Guided Switching — Agonist in Amyloid Phase, Antagonist in Tau Ph

TDP-43 condensation thermodynamics as a therapeutic target and biomarker for nuc

Score: 0.724 · neuroscience · 2026-04-26

FRAP-based measurement of TDP-43 liquid-liquid phase separation state provides a continuous biomarker of nuclear-cytopla

CSF YKL-40 as a Priming-Specific Chitinase Marker

Score: 0.723 · biomarkers · 2026-04-22

## Mechanistic Overview CSF YKL-40 as a Priming-Specific Chitinase Marker starts from the claim that modulating CHI3L1/Y

NLRP3 Inflammasome Inhibition for Neuroprotection in Parkinson's Disease

Score: 0.720 · neurodegeneration · 2026-04-28

Targeted inhibition of NLRP3 inflammasome activation attenuates alpha-synuclein-driven microglial neuroinflammation, red

Pharmacologic activation of GBA1 to reduce alpha-synuclein burden in Parkinson's

Score: 0.720 · neurodegeneration · 2026-05-01

GBA1 mutations represent the strongest genetic risk factor for PD (OR 5-20x), and GCase dysfunction creates a druggable

LRRK2 kinase inhibition to normalize lysosomal trafficking in Parkinson's diseas

Score: 0.710 · neurodegeneration · 2026-05-01

LRRK2 G2019S mutations cause autosomal dominant PD through hyperactivation that impairs vesicular trafficking via Rab GT