entity

DEP

Entity Detail — Knowledge Graph Node

Understanding Entity Pages

This page aggregates everything SciDEX knows about DEP: 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.

6Connections

30Hypotheses

0Analyses

6Outgoing

0Incoming

14Experiments

0Debates

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Wiki Pages (4)

Knowledge base pages for this entity

Outgoing (6)

Target	Relation	Type	Str
Breast Cancer	contributes_to	disease	0.90
MAPK1	binds	protein	0.90
ESR1	binds	protein	0.90
Breast Cancer	risk_factor_for	disease	0.85
AKT1	binds	protein	0.85
SRC	binds	protein	0.85

Incoming (0)

Source	Relation	Type	Str
No incoming edges

Targeting Hypotheses (30)

Hypotheses where this entity is a therapeutic target

Hypothesis	Score	Disease	Analysis
TREM2-Dependent Astrocyte-Microglia Cross-talk in Neurodegen	0.990	neurodegeneration	TREM2 in Alzheimer's Disease: Mechanisms
TREM2-Dependent Microglial Senescence Transition	0.950	neurodegeneration	TREM2 in Alzheimer's Disease: Mechanisms
PLCG2 Allosteric Modulation as a Precision Therapeutic for T	0.941	neurodegeneration	TREM2 agonism vs antagonism in DAM micro
HK2-Dependent Metabolic Checkpoint as the Gatekeeper of DAM	0.919	neurodegeneration	How do different microglial subtypes (DA
SIRT1-Mediated Reversal of TREM2-Dependent Microglial Senesc	0.895	neurodegeneration	Gene expression changes in aging mouse b

APOE-Dependent Autophagy Restoration	0.850	neurodegeneration	Mechanistic role of APOE in neurodegener
SIRT1 Activation Couples Mitochondrial Biogenesis to Ferropt	0.824	neurodegeneration	View
LRP1-Dependent Tau Uptake Disruption	0.808	neurodegeneration	Tau propagation mechanisms and therapeut
Sleep-Dependent Glymphatic Clearance Expands the Therapeutic	0.780	neurodegeneration	What is the therapeutic window between t
Lysosomal Cathepsin-Dependent Tau Clearance	0.767	neurodegeneration	View
Senescence-Activated NAD+ Depletion Rescue	0.755	neurodegeneration	Senolytic therapy for age-related neurod
Near-infrared light therapy stimulates COX4-dependent mitoch	0.742	neurodegeneration	Mitochondrial transfer between astrocyte
MEF2C-Dependent Synaptic Gene Regulation	0.740	neurodegeneration	What molecular mechanisms mediate HDAC9'
Kinetic Modeling Predicts Threshold-Dependent Efficacy—Early	0.740	protein folding	Can chaperone enhancement approaches ove
Mutant-dependent amplification is context-dependent and stro	0.740	neurodegeneration	Do pathogenic LRRK2 mutations amplify vo
Context-Dependent Cx43 Modulation Based on Disease Stage	0.724	cell biology	What is the relative contribution of con
Regional TREM2-Dependent Lipid Metabolism Determines Cortica	0.710	neuroinflammation	How do regional, age, and sex-dependent
Microglial Disease-Associated States: TREM2-Independent Path	0.710	neurodegeneration	Cell type vulnerability debate in Alzhei
TREM2-Dependent Switch Hypothesis: TREM2 Agonism Redirects S	0.708	synaptic biology	Does SPP1-mediated synaptic engulfment r
SCFA-Producing Bacterial Depletion → Loss of Neuroprotective	0.700	neurodegeneration	What are the mechanisms by which gut mic
SARM1-Mediated NAD+ Depletion as Terminal Executor of MCT1-D	0.698	neurodegeneration	What is the molecular mechanism by which
TFEB-Independent Autophagy Bypass	0.697	neurodegeneration	Does TFEB dysfunction cause neurodegener
TREM2-Dependent Microglial Surveillance Controls AQP4-Mediat	0.691	neuroscience	Circuit-level neural dynamics in neurode
Astrocyte Reactivity Heterogeneity with APOE4-Dependent Vuln	0.690	neurodegeneration	Cell type vulnerability debate in Alzhei
TFEB-Dependent Lysosome Biogenesis	0.690	neurodegeneration	How does controlled lysosomal membrane p
TREM2-Dependent Microglial State Transition as Therapeutic W	0.690	neurodegeneration	Gap 006 analysis (archived stub)
Context-Dependent CRISPR Activation in Specific Neuronal Sub	0.682	neurodegeneration	CRISPR-based therapeutic approaches for
RAB27A-dependent extracellular vesicle engineering for mitoc	0.674	neurodegeneration	Mitochondrial transfer between astrocyte
AQP4-Dependent Astrocyte Swelling Exacerbates Excitotoxic Ne	0.670	neurodegeneration	What are the specific molecular mechanis
Microglial P2Y12-Dependent Territorial Segregation of Synapt	0.670	synaptic biology	What determines the selectivity of compl

Mentioning Analyses (0)

Scientific analyses that reference this entity

No analyses mention this entity

Experiments (14)

Experimental studies targeting or related to this entity

Experiment	Type	Disease	Score	Model	Status	Est. Cost
Meta-analysis of LRP1 C766T polymorphism and Alzheimer's disease susce	exploratory	Alzheimer's disease	0.950	human patients	proposed	N/A
iPSC-NPC effects on astrocytes in vitro ICH model	exploratory	intracerebral hemorrhage	0.900	in vitro ICH cell culture mode	proposed	N/A
Irisin effects on osteogenic differentiation in mesenchymal stem cells	exploratory	bone fracture	0.900	mouse bone mesenchymal stem ce	proposed	N/A
AMPK knockdown validation experiment	exploratory	intracerebral hemorrhage	0.880	astrocyte cell culture	proposed	N/A
P2RY12-MTOR pathway interaction in VSMCs	exploratory	atherosclerosis	0.850	cultured VSMCs	proposed	N/A
iPSC-NPC transplantation in ICH animal model	validation	intracerebral hemorrhage	0.850	animal ICH model	proposed	N/A
HDAC4 inhibition and NHE6 expression mechanism study	exploratory	Alzheimer's disease	0.850		proposed	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.800	Mouse (5xFAD/TREM2-/-)	completed	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.800	Mouse (5xFAD/TREM2-/-)	completed	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.800	Mouse (5xFAD/TREM2-/-)	in_progress	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.800	Mouse (5xFAD/TREM2-/-)	completed	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.800	Mouse (5xFAD/TREM2-/-)	completed	N/A
E2F coordination of G2/M transcriptional program	exploratory		0.750	endocycling mammalian cells	proposed	N/A
TREM2 KO amyloid pathology study	validation	Alzheimers Disease	0.200	Mouse (5xFAD/TREM2-/-)	in_progress	N/A

Related Papers (20)

Scientific publications cited in analyses involving this entity

Title & PMID	Authors	Journal	Year	Citations
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
TREM2, microglia, and Alzheimer's disease. [PMID:33516818]	Qin Q, Teng Z, Liu C, Li Q, Yin Y, Tang	Mech Ageing Dev	2021	1
Human and mouse single-nucleus transcriptomics reveal TREM2-dependent and TREM2- [PMID:31932797]	Zhou Y, Song WM, Andhey PS, Swain A, Lev	Nat Med	2020	1
TREM2 Maintains Microglial Metabolic Fitness in Alzheimer's Disease. [PMID:28802038]	Ulland TK, Song WM, Huang SC, Ulrich JD,	Cell	2017	1
The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Mic [PMID:28930663]	Krasemann S, Madore C, Cialic R, Baufeld	Immunity	2017	1
Precision Neurodegeneration: Integrating Molecular Mechanisms, Biomarkers, and T [PMID:41833042]	["Lyu G", "Li D"]	CNS & neurological disorders d	2026	0
Emerging pathological mechanisms of Alzheimer's disease pathogenesis: from neuro [PMID:41858793]	["Wang R", "Feng Y", "Zhou Z", "Jiang J"	Frontiers in aging neuroscienc	2026	0
Human CSF proteogenomics links genetic variation to neurodegenerative disease pr [PMID:41757182]	["Puerta R", "Garc\u00eda-Gonz\u00e1lez	medRxiv : the preprint server	2026	0
Replating Induces mTOR-Dependent Rescue of Protein Synthesis in Charcot-Marie-To [PMID:41876253]	Koenig J, McGuire A, Homedan Y, Alberhas	eNeuro	2026	0
S-equol promotes ferroptosis in triple negative breast cancer by coordinating NC [PMID:41925800]	Ni F, Huang Z, Cui Y, Huang P, Xue Z, Hu	Molecular and cellular biochem	2026	0
PLCG2 signaling and genetic resilience in Alzheimer's disease. [PMID:41888907]	Tsai AP, Martin AK, Mi A, Yeh AE, Ramire	Molecular neurodegeneration	2026	0
Metabolic dysregulation reshapes the immune landscape: The gut microbiota-mTOR a [PMID:41445190]	Li J, Li J, Chen K	Mol Ther	2026	0
Senecavirus a VP2 protein orchestrates PRDX1 degradation through dual autophagy [PMID:41479169]	Li Z, Yang X, Mao J, Zeng P, Qi Y et al.	Autophagy	2026	0
Inhibition of mTOR Enhances the Efficacy of Proteasome-Dependent Targeted Protei [PMID:41529091]	Liu Y, Sun Y, Song TY, Ni SY, Pu YS et a	Cancer Res	2026	0
Microglial metabolic reprogramming in Alzheimer's disease: Pathways, mechanisms, [PMID:41651180]	Yang FG, Yang H, Han SW, Wang JT, Gao W	Ageing Res Rev	2026	0
mTOR signaling pathway in primary Sjögren's syndrome: Pathogenesis and potential [PMID:41789635]	Huo R, Yang Y, Wei C, Yang Y, Meng D et	Int J Mol Med	2026	0
Microcystin-LR-induced phosphorylation imbalance and organelle stress: An integr [PMID:41846138]	Teng Z, Shahzad A, Xu Z, Xia J, Zhang J	J Hazard Mater	2026	0
PLCG2 signaling and genetic resilience in Alzheimer's disease. [PMID:41888907]	Tsai AP, Martin AK, Mi A, Yeh AE, Ramire	Mol Neurodegener	2026	0
Copper deficiency impairs oligodendrocyte maturation and social behavior via mit [PMID:41920999]	Usui N, Doi M, Berto S, Matsuoka K, Ishi	Sci Adv	2026	0
TREM2 deficiency delays postnatal microglial maturation and synaptic pruning, le [PMID:41930604]	Yang HC, Deng YS, Zhang J, Zhang T, Song	J Alzheimers Dis	2026	0

Debates (0)

Multi-agent debates referencing this entity

No debates reference this entity

Related Research

Hypotheses and analyses mentioning DEP in their description or question text

APOE-Dependent Autophagy Restoration

Score: 0.850 · neurodegeneration · 2026-04-02

## Mechanistic Overview APOE-Dependent Autophagy Restoration starts from the claim that modulating MTOR within the disea

SIRT1 Activation Couples Mitochondrial Biogenesis to Ferroptosis Suppression via

Score: 0.824 · neurodegeneration · 2026-04-17

## Mechanistic Overview SIRT1 Activation Couples Mitochondrial Biogenesis to Ferroptosis Suppression via PGC1alpha-Depen

LRP1-Dependent Tau Uptake Disruption

Score: 0.808 · neurodegeneration · 2026-04-16

## Mechanistic Overview LRP1-Dependent Tau Uptake Disruption starts from the claim that modulating LRP1 within the disea

Sleep-Dependent Glymphatic Clearance Expands the Therapeutic Window by Reducing

Score: 0.780 · neurodegeneration · 2026-04-22

## Mechanistic Overview Sleep-Dependent Glymphatic Clearance Expands the Therapeutic Window by Reducing Extracellular Ta

Lysosomal Cathepsin-Dependent Tau Clearance

Score: 0.767 · neurodegeneration · 2026-04-17

## Mechanistic Overview Lysosomal Cathepsin-Dependent Tau Clearance starts from the claim that modulating not yet specif

Senescence-Activated NAD+ Depletion Rescue

Score: 0.755 · neurodegeneration · 2026-04-02

## Mechanistic Overview Senescence-Activated NAD+ Depletion Rescue starts from the claim that modulating CD38/NAMPT with

Near-infrared light therapy stimulates COX4-dependent mitochondrial motility enh

Score: 0.742 · neurodegeneration · 2026-04-02

## Mechanistic Overview Near-infrared light therapy stimulates COX4-dependent mitochondrial motility enhancement starts

MEF2C-Dependent Synaptic Gene Regulation

Score: 0.740 · neurodegeneration · 2026-04-15

## **Molecular Mechanism and Rationale** The molecular basis for MEF2C-dependent synaptic gene regulation centers on a

Kinetic Modeling Predicts Threshold-Dependent Efficacy—Early Intervention Requir

Score: 0.740 · protein folding · 2026-04-22

**Molecular Mechanism and Rationale** The therapeutic hypothesis centers on the kinetic constraints governing chaperone

Mutant-dependent amplification is context-dependent and strongest in microglia a

Score: 0.740 · neurodegeneration · 2026-04-24

A credible refinement is that any true amplification is not universal across cell types, but emerges most strongly in pr

Context-Dependent Cx43 Modulation Based on Disease Stage

Score: 0.724 · cell biology · 2026-04-13

## Mechanistic Overview Context-Dependent Cx43 Modulation Based on Disease Stage starts from the claim that modulating G

Regional TREM2-Dependent Lipid Metabolism Determines Cortical Vulnerability in A

Score: 0.710 · neuroinflammation · 2026-04-22

## Mechanistic Overview Regional TREM2-Dependent Lipid Metabolism Determines Cortical Vulnerability in Alzheimer's Disea

Microglial Disease-Associated States: TREM2-Independent Pathways Driving Neuroin

Score: 0.710 · neurodegeneration · 2026-04-22

## Mechanistic Overview Microglial Disease-Associated States: TREM2-Independent Pathways Driving Neuroinflammation start

TREM2-Dependent Switch Hypothesis: TREM2 Agonism Redirects SPP1 Signaling from D

Score: 0.708 · synaptic biology · 2026-04-21

## Mechanistic Overview TREM2-Dependent Switch Hypothesis: TREM2 Agonism Redirects SPP1 Signaling from Destructive to Re

SCFA-Producing Bacterial Depletion → Loss of Neuroprotective Microenvironment

Score: 0.700 · neurodegeneration · 2026-04-22

**Molecular Mechanism and Rationale** The gut-brain axis represents a critical bidirectional communication network that

DEP