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Synchronized genetic activities in Alzheimer’s brains revealed by heterogeneity-capturing network analysis

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Outgoing claims: the papers this work cites, builds on, or argues with.

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A Custom Correlation Coefficient (CCC) Approach for Fast Identification of Multi‐SNP Association Patterns in Genome‐Wide SNPs Data
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Antibodies: Basic Mechanisms and Emerging Concepts
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CREB: A mediator of long-term memory from mollusks to mammals
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Increased levels of DNA breaks in cerebral cortex of Alzheimer's disease patients
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Genetic Control of Human Brain Transcript Expression in Alzheimer Disease
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Mitochondrial dysfunction is a trigger of Alzheimer's disease pathophysiology
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NFAT and NF-κB factors—the distant relatives
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Interleukin-18 promoter polymorphisms and risk of late onset Alzheimer's disease
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Twenty Years of the Alzheimer’s Disease Amyloid Hypothesis: A Genetic Perspective
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Chromatin Challenges during DNA Replication and Repair
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Amyloid beta, mitochondrial structural and functional dynamics in Alzheimer's disease
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Serum/glucocorticoid‐inducible kinase can phosphorylate the cyclic AMP response element binding protein, CREB
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The mRNA Surveillance Protein hSMG-1 Functions in Genotoxic Stress Response Pathways in Mammalian Cells
inferredcites →https://doi.org/10.1016/j.molmed.2007.12.002openalex-snapshot
Amyloid beta, mitochondrial dysfunction and synaptic damage: implications for cognitive decline in aging and Alzheimer's disease
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Gene expression correlates of neurofibrillary tangles in Alzheimer's disease
inferredcites →https://doi.org/10.1016/j.neurobiolaging.2010.03.004openalex-snapshot
APOE ε4 is associated with longer telomeres, and longer telomeres among ε4 carriers predicts worse episodic memory
inferredcites →https://doi.org/10.1016/j.neuroscience.2010.02.055openalex-snapshot
Mice knock out for the histone acetyltransferase p300/CREB binding protein-associated factor develop a resistance to amyloid toxicity
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The nicotinic acetylcholine receptor CHRNA5/A3/B4 gene cluster: Dual role in nicotine addiction and lung cancer
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Stimulation of α4β2 nicotinic acetylcholine receptors inhibits β-amyloid toxicity
inferredcites →https://doi.org/10.1016/s0047-6374(00)00172-xopenalex-snapshot
β-Amyloid-induced activation of Caspase-3 in primary cultures of rat neurons
inferredcites →https://doi.org/10.1016/s0092-8674(01)00274-4openalex-snapshot
Structural Basis for the Inhibition of Caspase-3 by XIAP
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Loss of the Suv39h Histone Methyltransferases Impairs Mammalian Heterochromatin and Genome Stability
inferredcites →https://doi.org/10.1016/s0306-4522(01)00460-2openalex-snapshot
Intracellular accumulation of β-amyloid1–42 in neurons is facilitated by the α7 nicotinic acetylcholine receptor in Alzheimer’s disease
inferredcites →https://doi.org/10.1016/s0896-6273(03)00694-9openalex-snapshot
Dysregulation of Protein Kinase A Signaling in the Aged Prefrontal Cortex
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Surface Plasmon Resonance and Nuclear Magnetic Resonance Studies of ABAD−Aβ Interaction
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Mammalian XRCC2 promotes the repair of DNA double-strand breaks by homologous recombination
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Assessment of the Psoriatic Transcriptome in a Large Sample: Additional Regulated Genes and Comparisons with In Vitro Models
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NAD synthase NMNAT acts as a chaperone to protect against neurodegeneration
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XIAP discriminates between type I and type II FAS-induced apoptosis
inferredcites →https://doi.org/10.1038/nature09298openalex-snapshot
Integrating common and rare genetic variation in diverse human populations
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RAD18 transmits DNA damage signalling to elicit homologous recombination repair
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Histone H3 methylation links DNA damage detection to activation of the tumour suppressor Tip60
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Human gephyrin is encompassed within giant functional noncoding yin–yang sequences
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Increasing CREB Function in the CA1 Region of Dorsal Hippocampus Rescues the Spatial Memory Deficits in a Mouse Model of Alzheimer's Disease
inferredcites →https://doi.org/10.1038/npp.2011.126openalex-snapshot
Is CREB the Angry Bird that Releases Memory in Alzheimer's?
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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
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NFAT5: helping out in stressful times
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Y-family DNA polymerases and their role in tolerance of cellular DNA damage
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Human inhibitor of apoptosis proteins: why XIAP is the black sheep of the family
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Molecular interactions between telomerase and the tumor suppressor protein p53 in vitro
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Ethanol-responsive genes: identification of transcription factors and their role in metabolomics
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The Catalytic Subunit of Telomerase Protects Neurons Against Amyloid β‐Peptide‐Induced Apoptosis
inferredcites →https://doi.org/10.1046/j.1471-4159.2001.t01-1-00220.xopenalex-snapshot
A synthetic inhibitor of p53 protects neurons against death induced by ischemic and excitotoxic insults, and amyloid beta-peptide
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TL1A (TNFSF15) Regulates the Development of Chronic Colitis by Modulating Both T-Helper 1 and T-Helper 17 Activation
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Clinical and Biomarker Changes in Dominantly Inherited Alzheimer's Disease
inferredcites →https://doi.org/10.1073/pnas.0601602103openalex-snapshot
Modularity and community structure in networks
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Regulation of poly(ADP-ribose) polymerase 1 activity by the phosphorylation state of the nuclear NAD biosynthetic enzyme NMN adenylyl transferase 1
inferredcites →https://doi.org/10.1073/pnas.0806192105openalex-snapshot
The amyloid β-peptide is imported into mitochondria via the TOM import machinery and localized to mitochondrial cristae
inferredcites →https://doi.org/10.1073/pnas.091062498openalex-snapshot
Significance analysis of microarrays applied to the ionizing radiation response
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Reverse engineering gene networks: Integrating genetic perturbations with dynamical modeling
inferredcites →https://doi.org/10.1073/pnas.1109297108openalex-snapshot
Constitutive cAMP response element binding protein (CREB) activation by Alzheimer's disease presenilin-driven inositol trisphosphate receptor (InsP 3 R) Ca 2+ signaling
inferredcites →https://doi.org/10.1073/pnas.95.25.14863openalex-snapshot
Cluster analysis and display of genome-wide expression patterns
inferredcites →https://doi.org/10.1074/jbc.275.8.5626openalex-snapshot
β-Amyloid1–42 Binds to α7 Nicotinic Acetylcholine Receptor with High Affinity
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Six-transmembrane Topology for Golgi Anti-apoptotic Protein (GAAP) and Bax Inhibitor 1 (BI-1) Provides Model for the Transmembrane Bax Inhibitor-containing Motif (TMBIM) Family
inferredcites →https://doi.org/10.1074/jbc.m504852200openalex-snapshot
The p53-induced Gene-6 (Proline Oxidase) Mediates Apoptosis through a Calcineurin-dependent Pathway
inferredcites →https://doi.org/10.1074/jbc.m610443200openalex-snapshot
An Essential Role of Human Ada3 in p53 Acetylation
inferredcites →https://doi.org/10.1074/jbc.m704117200openalex-snapshot
Stimulation of Actin Polymerization by Vacuoles via Cdc42p-dependent Signaling
inferredcites →https://doi.org/10.1080/10425170310001656756openalex-snapshot
Cloning and Identification of a Novel Human GenePDLIM5, a Homolog of AD-associated Neuronal Thread Protein (AD7c-NTP)
inferredcites →https://doi.org/10.1083/jcb.200110119openalex-snapshot
Selective cytotoxicity of intracellular amyloid β peptide1–42 through p53 and Bax in cultured primary human neurons
inferredcites →https://doi.org/10.1085/jgp.200709935openalex-snapshot
Inflammatory Mediators Increase Nav1.9 Current and Excitability in Nociceptors through a Coincident Detection Mechanism
inferredcites →https://doi.org/10.1089/106652700750050961openalex-snapshot
Using Bayesian Networks to Analyze Expression Data
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Novel Genetic Tools Reveal Cdk5's Major Role in Golgi Fragmentation in Alzheimer's Disease
inferredcites →https://doi.org/10.1091/mbc.e09-05-0385openalex-snapshot
Human Golgi Antiapoptotic Protein Modulates Intracellular Calcium Fluxes
inferredcites →https://doi.org/10.1093/ajcn/83.2.447sopenalex-snapshot
Interleukin 1 and interleukin 18 as mediators of inflammation and the aging process
inferredcites →https://doi.org/10.1093/hmg/ddl066openalex-snapshot
Mitochondria are a direct site of Aβ accumulation in Alzheimer's disease neurons: implications for free radical generation and oxidative damage in disease progression
inferredcites →https://doi.org/10.1093/hmg/ddp231openalex-snapshot
Risk for nicotine dependence and lung cancer is conferred by mRNA expression levels and amino acid change in CHRNA5
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Impaired mitochondrial biogenesis, defective axonal transport of mitochondria, abnormal mitochondrial dynamics and synaptic degeneration in a mouse model of Alzheimer's disease
inferredcites →https://doi.org/10.1093/hmg/ddr449openalex-snapshot
NMNAT suppresses Tau-induced neurodegeneration by promoting clearance of hyperphosphorylated Tau oligomers in a Drosophila model of tauopathy
inferredcites →https://doi.org/10.1096/fj.05-3735fjeopenalex-snapshot
Mitochondrial Aβ: a potential focal point for neuronal metabolic dysfunction in Alzheimer's disease
inferredcites →https://doi.org/10.1096/fj.09-133587openalex-snapshot
17β‐Hydroxysteroid dehydrogenase type 8 and carbonyl reductase type 4 assemble as a ketoacyl reductase of human mitochondrial FAS
inferredcites →https://doi.org/10.1097/00019442-200407000-00003openalex-snapshot
Metaanalysis of Randomized Trials of the Efficacy and Safety of Donepezil, Galantamine, and Rivastigmine for the Treatment of Alzheimer Disease
inferredcites →https://doi.org/10.1101/gad.973302openalex-snapshot
SETDB1: a novel KAP-1-associated histone H3, lysine 9-specific methyltransferase that contributes to HP1-mediated silencing of euchromatic genes by KRAB zinc-finger proteins
inferredcites →https://doi.org/10.1101/gr.175501openalex-snapshot
Gene Expression Profiling in Human Fetal Liver and Identification of Tissue- and Developmental-Stage-Specific Genes through Compiled Expression Profiles and Efficient Cloning of Full-Length cDNAs
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Chronic enhancement of CREB activity in the hippocampus interferes with the retrieval of spatial information
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Finding and evaluating community structure in networks
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A modified β‐amyloid hypothesis: intraneuronal accumulation of the β‐amyloid peptide – the first step of a fatal cascade
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Nicotinic α5 subunit deletion locally reduces high‐affinity agonist activation without altering nicotinic receptor numbers
inferredcites →https://doi.org/10.1111/j.1479-8301.2011.00355.xopenalex-snapshot
Protein kinase C stabilizes X‐linked inhibitor of apoptosis protein (XIAP) through phosphorylation at Ser87 to suppress apoptotic cell death
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Stonins—Specialized Adaptors for Synaptic Vesicle Recycling and Beyond?
inferredcites →https://doi.org/10.1124/mol.106.030445openalex-snapshot
Ca2+ Permeability of the (α4)3(β2)2 Stoichiometry Greatly Exceeds That of (α4)2(β2)3 Human Acetylcholine Receptors
inferredcites →https://doi.org/10.1124/mol.108.046789openalex-snapshot
Roles of Accessory Subunits in α4β2* Nicotinic Receptors
inferredcites →https://doi.org/10.1124/mol.53.3.392openalex-snapshot
Nicotinic Receptor Subtypes in the Developing Chick Brain: Appearance of a Species Containing the α4, β2, and α5 Gene Products
inferredcites →https://doi.org/10.1124/pr.108.000562openalex-snapshot
Nicotinic Acetylcholine Receptor Signalling: Roles in Alzheimer’s Disease and Amyloid Neuroprotection
inferredcites →https://doi.org/10.1126/science.1087447openalex-snapshot
A Gene-Coexpression Network for Global Discovery of Conserved Genetic Modules
inferredcites →https://doi.org/10.1126/science.1090887openalex-snapshot
Microarrays--Guilt by Association
inferredcites →https://doi.org/10.1126/science.1091230openalex-snapshot
ABAD Directly Links Aß to Mitochondrial Toxicity in Alzheimer's Disease
inferredcites →https://doi.org/10.1126/science.1140321openalex-snapshot
ATM and ATR Substrate Analysis Reveals Extensive Protein Networks Responsive to DNA Damage
inferredcites →https://doi.org/10.1126/science.1321498openalex-snapshot
Syntaxin: A Synaptic Protein Implicated in Docking of Synaptic Vesicles at Presynaptic Active Zones
inferredcites →https://doi.org/10.1126/science.275.5302.973openalex-snapshot
A Mammalian Telomerase-Associated Protein
inferredcites →https://doi.org/10.1126/science.285.5431.1276openalex-snapshot
Anti-inflammatory Properties of Cytochrome P450 Epoxygenase-Derived Eicosanoids
inferredcites →https://doi.org/10.1128/mcb.00976-08openalex-snapshot
Molecular Regulation of H3K4 Trimethylation by Wdr82, a Component of Human Set1/COMPASS
inferredcites →https://doi.org/10.1128/mcb.01063-10openalex-snapshot
Epigenetic Regulation of Surfactant Protein A Gene (SP-A) Expression in Fetal Lung Reveals a Critical Role for Suv39h Methyltransferases during Development and Hypoxia
inferredcites →https://doi.org/10.1128/mcb.01321-09openalex-snapshot
Yeast Exonuclease 5 Is Essential for Mitochondrial Genome Maintenance
inferredcites →https://doi.org/10.1146/annurev.neuro.21.1.127openalex-snapshot
CREB AND MEMORY
inferredcites →https://doi.org/10.1159/000333341openalex-snapshot
CREB-Regulated Transcription Coactivator 1-Dependent Transcription in Alzheimer’s Disease Mice
inferredcites →https://doi.org/10.1172/jci37873openalex-snapshot
NFAT/Fas signaling mediates the neuronal apoptosis and motor side effects of GSK-3 inhibition in a mouse model of lithium therapy
inferredcites →https://doi.org/10.1186/1479-5876-5-36openalex-snapshot
Haplotype of gene Nedd4 binding protein 2 associated with sporadic nasopharyngeal carcinoma in the Southern Chinese population
inferredcites →https://doi.org/10.1186/1752-0509-4-136openalex-snapshot
Analysis of Alzheimer's disease severity across brain regions by topological analysis of gene co-expression networks
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In silico prediction of protein-protein interactions in human macrophages
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Variations in the transcriptome of Alzheimer's disease reveal molecular networks involved in cardiovascular diseases
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The endonuclease Ankle1 requires its LEM and GIY-YIG motifs for DNA cleavage in vivo
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Geometric Interpretation of Gene Coexpression Network Analysis
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Allele-Specific Network Reveals Combinatorial Interaction That Transcends Small Effects in Psoriasis GWAS
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A Novel System of Polymorphic and Diverse NK Cell Receptors in Primates
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How Chromatin Is Remodelled during DNA Repair of UV-Induced DNA Damage in Saccharomyces cerevisiae
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Boolean Network Model Predicts Cell Cycle Sequence of Fission Yeast
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Evaluation of the Psoriasis Transcriptome across Different Studies by Gene Set Enrichment Analysis (GSEA)
inferredcites →https://doi.org/10.1371/journal.pone.0028887openalex-snapshot
Inhibition of the Mitochondrial Enzyme ABAD Restores the Amyloid-β-Mediated Deregulation of Estradiol
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A New Inhibitor of Apoptosis from Vaccinia Virus and Eukaryotes
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Tipping the Apoptotic Balance in Alzheimer's Disease: The Abortosis Concept
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Inhibition of Neuronal Nicotinic Acetylcholine Receptor Channels Expressed in Xenopus Oocytes by β-Amyloid1–42 Peptide
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The role of CREB signaling in Alzheimer’s disease and other cognitive disorders
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The Proteasome-Associated Deubiquitinating Enzyme Usp14 Is Essential for the Maintenance of Synaptic Ubiquitin Levels and the Development of Neuromuscular Junctions
inferredcites →https://doi.org/10.1523/jneurosci.3699-09.2010openalex-snapshot
Expression of β-Amyloid Induced Age-Dependent Presynaptic and Axonal Changes in Drosophila
inferredcites →https://doi.org/10.1523/jneurosci.3850-07.2007openalex-snapshot
cAMP Response Element-Binding Protein-Mediated Gene Expression Increases the Intrinsic Excitability of CA1 Pyramidal Neurons
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Inhibition of Amyloid-β (Aβ) Peptide-Binding Alcohol Dehydrogenase-Aβ Interaction Reduces Aβ Accumulation and Improves Mitochondrial Function in a Mouse Model of Alzheimer's Disease
inferredcites →https://doi.org/10.1523/jneurosci.5186-05.2006openalex-snapshot
System Xc−and Apolipoprotein E Expressed by Microglia Have Opposite Effects on the Neurotoxicity of Amyloid-β Peptide 1–40
inferredcites →https://doi.org/10.1523/jneurosci.6159-08.2009openalex-snapshot
Deletion of the 7 Nicotinic Acetylcholine Receptor Gene Improves Cognitive Deficits and Synaptic Pathology in a Mouse Model of Alzheimer's Disease
inferredcites →https://doi.org/10.1534/g3.115.026773openalex-snapshot
Latitudinal Clines of the Human Vitamin D Receptor and Skin Color Genes
inferredcites →https://doi.org/10.2174/156720506778249470openalex-snapshot
Apoptosis in Alzheimer Disease: A Mathematical Improbability
inferredcites →https://doi.org/10.25365/thesis.405openalex-snapshot
Characterization of novel members of the LEM-domain containing protein family in mammalian cells
inferredcites →https://doi.org/10.2741/monteopenalex-snapshot
The AD7C-NTP neuronal thread protein biomarker for detecting Alzheimer's disease
inferredcites →https://doi.org/10.3233/jad-180802openalex-snapshot
Understanding the Amyloid Hypothesis in Alzheimer’s Disease
inferredcites →https://doi.org/10.3233/jad-2001-3310openalex-snapshot
The AD7c-NTP neuronal thread protein biomarker for detecting Alzheimer's disease*
inferredcites →https://doi.org/10.3389/fnagi.2010.00008openalex-snapshot
Intracellular accumulation of amyloid-beta – a predictor for synaptic dysfunction and neuron loss in Alzheimer’s disease
inferredcites →https://doi.org/10.4161/cc.8.10.8535openalex-snapshot
Reduced expression of GINS complex members induces hallmarks of pre-malignancy in primary untransformed human cells
inferredcites →https://doi.org/10.7936/k79g5k4kopenalex-snapshot
Rearrangement Clustering: Pitfalls, Remedies, and Applications

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.