Numerical simulation of the Q-connectome: a brain model based on the three-layer quantum brain

Numerical simulation of the Q-connectome: a brain model based on the three-layer quantum brain | Research Square window.SnipcartSettings = { analytics: { enabled: false } }; (function() { var accessVector = localStorage.getItem('access_vector') || ''; window.dataLayer = window.dataLayer || []; if (accessVector) { window.dataLayer.push({ user: { profile: { profileInfo: { snid: accessVector } } } }); } })(); (function(w,d,s,l,i){w[l]=w[l]||[];w[l].push({'gtm.start':new Date().getTime(),event:'gtm.js'});var f=d.getElementsByTagName(s)[0],j=d.createElement(s),dl=l!='dataLayer'?'&l='+l:'';j.async=true;j.src='https://www.googletagmanager.com/gtm.js?id='+i+dl;f.parentNode.insertBefore(j,f);})(window,document,'script','dataLayer','GTM-K279D39R'); Browse Preprints In Review Journals COVID-19 Preprints AJE Video Bytes Research Tools Research Promotion AJE Professional Editing AJE Rubriq About Preprint Platform In Review Editorial Policies Our Team Advisory Board Help Center Sign In Submit a Preprint Cite Share Download PDF Research Article Numerical simulation of the Q-connectome: a brain model based on the three-layer quantum brain Hikaru Wakaura, Taiki Tanimae This is a preprint; it has not been peer reviewed by a journal. https://doi.org/ 10.21203/rs.3.rs-9586020/v1 This work is licensed under a CC BY 4.0 License Status: Posted Version 1 posted You are reading this latest preprint version Abstract We numerically study whether a coherence-preserving recovery (CPR) map modulates the stop-signal-cancellation window of a biophysical Lindblad model: a $d\!=\!4$ $\Pnuc$ nuclear-spin sector (Layer~1) and $d\!=\!8$ radical-pair interface (Layer~2) coupled to classical neurotransmitter electrochemistry (Layer~3) on a coarse-grained \textit{Drosophila}-like graph (64--320 nodes, classical inter-node coupling). Eight radical-pair proteins span a 23-fold range of nuclear $\Ttwo$ ($1.8$--$40.8$~ms). We find: (i)~preserved off-diagonal coherence breaks Buridan's symmetry while high-decoherence controls cannot, but \emph{any} non-maximally-mixed dynamics suffices; (ii)~CPR shifts the point of no return by $\DPoNR = 6.9$--$8.5\tu$ ($\approx 2$--$3$~ms), extending the simulated cancellation window 6--7-fold; (iii)~within $d\!=\!4$ the readout saturates for any CPR-mixing $\eta\!\ge\!0.01$---a model artifact; (iv)~multi-seed statistics ($15\!\times\!100$ trials) confirm veto-rate doubling ($d\!=\!4.44$, $p\!<\!10^{-6}$); (v)~$\DPoNR$ scales with $\log_{10}\Ttwo(\Pnuc)$ (Pearson $r\!=\!0.85$, permutation $p\!=\!0.012$). A reservoir-layer-substitution test shows the macroscopic statistics depend on decoherence rate and CPR strength, not on the unitary details of the quantum layers. The results are best read as a sensitivity analysis of how a non-CPTP coherence-preserving channel, embedded in a biophysical Lindblad model, modulates a behavioural timing readout; we make no metaphysical claims, and CPR is heuristic with no fault-tolerance threshold theorem (Sec.~\ref{sec:cpr}). Biophysics Full Text Additional Declarations The authors declare no competing interests. Cite Share Download PDF Status: Posted Version 1 posted You are reading this latest preprint version Research Square lets you share your work early, gain feedback from the community, and start making changes to your manuscript prior to peer review in a journal. As a division of Research Square Company, we’re committed to making research communication faster, fairer, and more useful. We do this by developing innovative software and high quality services for the global research community. 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Also discoverable on Platform About Our Team In Review Editorial Policies Advisory Board Help Center Resources Author Services Accessibility API Access RSS feed Manage Cookie Preferences © Research Square 2026 | ISSN 2693-5015 (online) Privacy Policy Terms of Service Do Not Sell My Personal Information {"props":{"pageProps":{"initialData":{"identity":"rs-9586020","acceptedTermsAndConditions":true,"allowDirectSubmit":true,"archivedVersions":[],"articleType":"Research Article","associatedPublications":[],"authors":[{"id":632958916,"identity":"06eaa66b-c058-4bea-9ee0-21ec29327ad5","order_by":0,"name":"Hikaru Wakaura","email":"data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAAZAAAAAyAQMAAABI0h/eAAAABlBMVEX///8AAABVwtN+AAAACXBIWXMAAA7EAAAOxAGVKw4bAAAA70lEQVRIiWNgGAWjYBACAyBmbACx2BsMwCJ87BBRIrTwHDAA89mYidYikYDQgheYM/AYfpxRcziff+bjjQ8+7vgjB9JSXIBHi2UDj7HkhmOHLWfcTis2nHnGwBikxXgGPocd4N0g+YDtsAHD7Rwzad42g8Q2kBYe/Fo2/3zw77CB/M0z5r//thnUE6Nlm+TGtsMGBjd4zJgZ2wwS2AhqOcz/zXJmX7qB4Zm0YsneM8aGbcyMDfj9crwt+WbPN2sDueOHN374uUNOnp+9+ZgxvhBjQIkFSAwxthnj04EKIFoYmB8Tr2UUjIJRMApGAAAApB1Ji9H0SDIAAAAASUVORK5CYII=","orcid":"","institution":"QIRI (Quantum Integrated Research Institute Inc.)","correspondingAuthor":true,"prefix":"","firstName":"Hikaru","middleName":"","lastName":"Wakaura","suffix":""},{"id":632958917,"identity":"95b8ece5-71ee-45ca-88e5-b25163678129","order_by":1,"name":"Taiki Tanimae","email":"","orcid":"","institution":"QIRI (Quantum Integrated Research Institute Inc.)","correspondingAuthor":false,"prefix":"","firstName":"Taiki","middleName":"","lastName":"Tanimae","suffix":""}],"badges":[],"createdAt":"2026-05-01 12:31:08","currentVersionCode":1,"declarations":{"humanSubjects":false,"vertebrateSubjects":false,"conflictsOfInterestStatement":false,"humanSubjectEthicalGuidelines":false,"humanSubjectConsent":false,"humanSubjectClinicalTrial":false,"humanSubjectCaseReport":false,"vertebrateSubjectEthicalGuidelines":false},"doi":"10.21203/rs.3.rs-9586020/v1","doiUrl":"https://doi.org/10.21203/rs.3.rs-9586020/v1","draftVersion":[],"editorialEvents":[],"editorialNote":"","failedWorkflow":false,"files":[{"id":108805294,"identity":"e8a7c955-f196-4f3e-a9aa-d00b5dd8f7e9","added_by":"auto","created_at":"2026-05-08 15:25:30","extension":"pdf","order_by":1,"title":"","display":"","copyAsset":false,"role":"manuscript-pdf","size":1585954,"visible":true,"origin":"","legend":"","description":"","filename":"main.pdf","url":"https://assets-eu.researchsquare.com/files/rs-9586020/v1_covered_7951d817-129a-4bf5-bfc6-9eef2ba2ce30.pdf"}],"financialInterests":"The authors declare no competing interests.","formattedTitle":"\u003cp\u003eNumerical simulation of the Q-connectome: a brain model based on the three-layer quantum brain\u003c/p\u003e","fulltext":[],"fulltextSource":"","fullText":"","funders":[],"hasAdminPriorityOnWorkflow":false,"hasManuscriptDocX":false,"hasOptedInToPreprint":true,"hasPassedJournalQc":"","hasAnyPriority":true,"hideJournal":true,"highlight":"","institution":"QIRI (Quantum Integrated Research Institute Inc.)","isAcceptedByJournal":false,"isAuthorSuppliedPdf":true,"isDeskRejected":"","isHiddenFromSearch":false,"isInQc":false,"isInWorkflow":false,"isPdf":true,"isPdfUpToDate":true,"isWithdrawnOrRetracted":false,"journal":{"display":true,"email":"[email protected]","identity":"researchsquare","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":true,"externalIdentity":"","sideBox":"","snPcode":"","submissionUrl":"/submission","title":"Research Square","twitterHandle":"researchsquare","acdcEnabled":true,"dfaEnabled":false,"editorialSystem":"","reportingPortfolio":"","inReviewEnabled":false,"inReviewRevisionsEnabled":true},"keywords":"","lastPublishedDoi":"10.21203/rs.3.rs-9586020/v1","lastPublishedDoiUrl":"https://doi.org/10.21203/rs.3.rs-9586020/v1","license":{"name":"CC BY 4.0","url":"https://creativecommons.org/licenses/by/4.0/"},"manuscriptAbstract":"\u003cp\u003eWe numerically study whether a coherence-preserving recovery (CPR) map modulates the stop-signal-cancellation window of a biophysical Lindblad model: a $d\\!=\\!4$ $\\Pnuc$ nuclear-spin sector (Layer~1) and $d\\!=\\!8$ radical-pair interface (Layer~2) coupled to classical neurotransmitter electrochemistry (Layer~3) on a coarse-grained\u003c/p\u003e\n\u003cp\u003e\\textit{Drosophila}-like graph (64--320 nodes, classical inter-node coupling). Eight radical-pair proteins span a 23-fold range of nuclear $\\Ttwo$ ($1.8$--$40.8$~ms).\u003c/p\u003e\n\u003cp\u003eWe find: (i)~preserved off-diagonal coherence breaks Buridan's symmetry while high-decoherence controls cannot, but \\emph{any} non-maximally-mixed dynamics suffices; (ii)~CPR shifts the point of no return by $\\DPoNR =\u003c/p\u003e\n\u003cp\u003e6.9$--$8.5\\tu$ ($\\approx 2$--$3$~ms), extending the simulated cancellation window 6--7-fold; (iii)~within $d\\!=\\!4$ the readout saturates for any CPR-mixing $\\eta\\!\\ge\\!0.01$---a model artifact; (iv)~multi-seed statistics ($15\\!\\times\\!100$ trials) confirm veto-rate doubling ($d\\!=\\!4.44$, $p\\!\u0026lt;\\!10^{-6}$); (v)~$\\DPoNR$ scales with $\\log_{10}\\Ttwo(\\Pnuc)$ (Pearson $r\\!=\\!0.85$, permutation $p\\!=\\!0.012$).\u003c/p\u003e\n\u003cp\u003eA reservoir-layer-substitution test shows the macroscopic statistics depend on decoherence rate and CPR strength, not on the unitary details of the quantum layers.\u003c/p\u003e\n\u003cp\u003eThe results are best read as a sensitivity analysis of how a non-CPTP coherence-preserving channel, embedded in a\u003c/p\u003e\n\u003cp\u003ebiophysical Lindblad model, modulates a behavioural timing readout; we make no metaphysical claims, and CPR is heuristic with no fault-tolerance threshold theorem (Sec.~\\ref{sec:cpr}).\u003c/p\u003e\n\u003cp\u003e\u003cbr\u003e\u003c/p\u003e","manuscriptTitle":"Numerical simulation of the Q-connectome: a brain model based on the three-layer quantum brain","msid":"","msnumber":"","nonDraftVersions":[{"code":1,"date":"2026-05-06 18:02:22","doi":"10.21203/rs.3.rs-9586020/v1","editorialEvents":[{"type":"communityComments","content":0}],"status":"published","journal":{"display":true,"email":"[email protected]","identity":"researchsquare","isNatureJournal":false,"hasQc":true,"allowDirectSubmit":true,"externalIdentity":"","sideBox":"","snPcode":"","submissionUrl":"/submission","title":"Research Square","twitterHandle":"researchsquare","acdcEnabled":true,"dfaEnabled":false,"editorialSystem":"","reportingPortfolio":"","inReviewEnabled":false,"inReviewRevisionsEnabled":true}}],"origin":"","ownerIdentity":"8768b55e-2e21-42ac-8c08-24534da08dc1","owner":[],"postedDate":"May 6th, 2026","published":true,"recentEditorialEvents":[],"rejectedJournal":[],"revision":"","amendment":"","status":"posted","subjectAreas":[{"id":67372327,"name":"Biophysics"}],"tags":[],"updatedAt":"2026-05-06T18:02:22+00:00","versionOfRecord":[],"versionCreatedAt":"2026-05-06 18:02:22","video":"","vorDoi":"","vorDoiUrl":"","workflowStages":[]},"version":"v1","identity":"rs-9586020","journalConfig":"researchsquare"},"__N_SSP":true},"page":"/article/[identity]/[[...version]]","query":{"redirect":"/article/rs-9586020","identity":"rs-9586020","version":["v1"]},"buildId":"XKTyCvWXoU3ODBz1xrDgd","isFallback":false,"isExperimentalCompile":false,"dynamicIds":[84888],"gssp":true,"scriptLoader":[]}