Mendes, Ana · Agonia Pereira, Luís · Vairinhos, Valter

1 files · 83 KB · zipdeclared

Dataset and commented Python program that reproduce, end to end, all the quantitative and lexical analyses of a study on study habits, self-regulation and well-being in hybrid higher education (n = 69). The associated article is currently under review; its full reference will be added upon acceptance. The package includes the anonymised questionnaire data, the reproduction script (fixed random seed), the exact library versions (requirements.txt) and full documentation of the composite indices.

Vasic, Iva · Reitemeyer, Benedikt · Fill, Hans-Georg

1 files · 849 KB · zipdeclared

These are code and supplementary material for the BIR 2026 conference paper on formal evaluation of LLM-generated conceptual models. Title: Evaluating LLM-Generated Conceptual Models: A Theoretical Approach for Formalizing the Calculation of Metrics on the Meta Level The work was financially supported by the Smart Living Lab , a joint project funded by the University of Fribourg, EPFL, and HEIA-FR.

Bunn, Andrew G.

1 files · 27 MB · zipdeclared

An applied, R-based introduction to time series analysis for environmental scientists and ecologists. It covers autocorrelation and stationarity, ARMA models, cross-correlation, regression with autocorrelated errors, trend detection, forecasting and reconstruction, and frequency-domain methods including wavelets, with an emphasis on building intuition and getting things done in R rather than mathematical derivation. The book originated as graduate course notes at Western Washington University.

Mehmetaj, Ilir

9 files · 12 MB · jpeg, pdf, pngdeclared

ABSTRACT - Seraphim Skin v1.0 Can the Seraphim UV-Protection Layer Reshape the USD 2.26 Trillion Clothing Industry? The global apparel market - worth roughly USD 1.8 trillion in 2024/25 and projected to reach USD 2.26 trillion by 2030 - is not the target of a niche within it, but of a material layer that integrates into any garment across the whole of it. Offered two identical garments at one price, one plain and one with permanent UV protection and passive cooling woven into the material itself, the buyer needs no persuasion. That is the lever, and the trend. The stakes are health, not fashion alone: ultraviolet radiation drives 83 percent of melanoma, the World Health Organization projects a 50 percent rise in incidence by 2040, two billion people work outdoors under rising heat stress, and fifty million live with UV-sensitive medical conditions. For millennia the answer has been oils, fabrics, and chemicals - each partial, each reapplied. This concept proposes that the protection be the fabric itself: permanent, physical, effective from first wear to hundredth wash. Seraphim Skin is a 35-micrometre, 45-gram-per-square-metre multilayer laminate - the same material family documented across this series, tuned here to the everyday-climate design point rather than the fire or energy-harvest ones. A diamond-like-carbon outer layer reflects ultraviolet across UV-A and UV-B through bandgap engineering and carries a self-cleaning lotus surface; a roughly 20-micrometre gradient graphene layer manages the infrared; a passivation layer isolates the active layer; a bio-compatible inner layer carries comfort and sensing. The concept states its layer hierarchy explicitly to prevent a contradiction: the 20-micrometre graphene layer carries the thermal work through thickness-tolerant mechanisms - isotope (¹²C/¹³C) phonon scattering and emission in the 8-to-13-micrometre atmospheric window - while the electronic decoupling of the Wiedemann-Franz violation at the Dirac point (Nature Physics, 2025) belongs only to the tens-of-nanometre sensor zone that powers biosensors from body heat. The fabric manages the full electromagnetic spectrum in one architecture: permanent UV-B and UV-A reflection at the material level, and emission of the body's 9-micrometre heat through the atmospheric window to the cold sky - the passive daytime radiative cooling demonstrated in peer-reviewed metafabrics. The thermal behaviour is described as a bounded rectifier (an outward bias in the class of 1.3-to-2-to-1, not an absolute valve), and the cooler-than-skin result is stated with its mechanism so it cannot be read as a violation of thermodynamics. Layer count is a design variable - the N-Factor: stacking N laminates compounds protection and answers what happens if a layer is damaged, since the remaining skins keep functioning and performance degrades gradually. Twelve novel contributions (NC-SKN-1 through NC-SKN-12) span five garment markets - outdoor labour, children, medical photoprotection, defence signature management, and luxury performance - and every surface between people and the sun: building and glazing envelopes, closed UV-filtering radiatively cooled desert greenhouses, and vehicle surfaces that lower cabin heat load to extend electric-vehicle range. Those who bear the downstream cost of UV damage and heat stress - insurers, employers with outdoor workforces, public health systems - are the structural payers: prevention shifts value from treatment toward avoidance. Because sub-ambient radiative-cooling textiles exist as prior art, each contribution is framed by its integration rather than any single function. Every load-bearing element exists at high maturity in another industry; the integrated laminate stands at TRL 2 to 3. The decisive experiment is a fabric coupon under a solar simulator - measured UV transmission, 8-to-13-micrometre emissivity, and sub-ambient temperature difference against exposed skin - turning the central claims into data for a few thousand euros. All parameters are theoretical design estimates requiring independent validation. This concept consolidates and refines a disclosure of March 2026 and operates at the everyday-climate design point (around 50°C), standing independent of the fire branch (600 to 1,200°C) and the energy-harvest branch of the same laminate family. The twelve novel contributions are placed on the public record of prior art as of the Zenodo publication date under CC BY-NC-ND 4.0, preventing future patent claims on these specific architectures by any party. Ilir Mehmetaj | Independent Concept Developer | CC BY-NC-ND 4.0 | 2026

Newman-Norlund, Roger

1 files · 51 MB · zipdeclared

brainWhiz is a static, single-page Three.js viewer for multi-atlas neuroimaging figures. It renders brain parcellations in 3D, colors regions by per-region CSV values or voxelwise .nii statistical maps (auto-matching a CSV to its atlas), draws DTI / resting-state connectivity, shows native-resolution slices and mosaics, and composes publication-ready figure panels — entirely in the browser. Bundled atlases, NeuroQuery task maps, and connectivity are third-party data with their own terms, for non-commercial research; cite the original sources.

Mehmetaj, Ilir

6 files · 25 MB · jpeg, pdf, pngdeclared

ABSTRACT - Seraphim Fire Response Ecosystem v1.0 Fire rescue runs on two clocks that have never agreed: an average emergency response of 8 to 14 minutes, and a survivable window of 2 to 4 minutes once a person stands inside an active fire zone. The gap is a material gap - Nomex, the aramid standard of firefighting since the 1970s, chars beyond 260°C, while a wildfire front burns at 600 to 900°C and a firestorm exceeds 1,100°C. For fifty years that difference has been managed with tactics: retreat lines, safety zones, the discipline of staying away. This concept closes it with material, and documents the ground branch of the HAAP platform family - the systems that operate inside the zone every current doctrine writes off. The foundation is one laminate. Seraphim S-100 is a four-layer stack of 35 micrometres and 45 grams per square metre: a diamond-like-carbon outer armour (tetrahedral amorphous carbon class with an oxidation-barrier overcoat, rated for transient direct-flame contact beyond 1,200°C, with sustained-air oxidation above 600°C carried as a named validation parameter), a Gradient Graphene layer whose active thickness of roughly 35 nanometres is a functional requirement of its physics, a Parylene HT dielectric, and a refractory nano-felt backplane. Two mechanisms carry the thermal claim: phonon scattering by engineered ¹²C/¹³C isotope disorder as the load-bearing channel at fire temperature, and the experimentally confirmed violation of the Wiedemann-Franz law in ultraclean graphene at the Dirac point (Nature Physics, 2025) as the laboratory anchor of the electronic channel. A division of labour governs the family: v1 skin rejects, v2 patches harvest - 1.3 to 2 kW of modelled power from the fire's own gradient feeding the coolant pump, the ember-deflection field, and the beacon, stated as a separate and smaller quantity than the 22 kW/m² resistance rating of the stack. Fourteen novel contributions (NC-SFR-1 through NC-SFR-14) document five systems built on that laminate. The AEGIS SUIT states its envelope in the grammar of protective-equipment standards: 600 to 1,000°C operating environment, 300 to 600°C sustained outer surface, 1,200°C peak contact - with an electrostatic Micro-PAML field of 5 to 10 kV/m deflecting embers before contact and a self-powered microfluidic-PCM cooling chain behind the armour. The Seraphim Survival Tent shelters six to eight standing people behind an atmosphere-capable multilayer-insulation wall - ten laminate skins with aerogel interlayers suppressing the gas conduction that defeats spacecraft MLI at ground level - with onboard oxygen, HCN/CO filtration, and an automatic beacon, differentiated point by point from the single-person USFS fire shelter, and deployable four ways, including stationary mounting in fire-extinguisher status for homes and businesses. The Seraphim House Plane is a direct-contact-rated, reusable building envelope in the USD 25,000 class protecting structures of two hundred times that value. The MGU is a single-mission tracked robot delivering one shelter through conditions that exclude aircraft and humans. HAAP 10 is the aircraft that lands inside the burn perimeter on a steam-pre-cooled corridor under automatic limits, with a fixed 60/40 water split reserved for its own protection and the turbine intake-temperature constraint placed openly on the record. A WASP Zone Guardian doctrine and the Prometheus Link - laser power down, biometrics up - bind every suit, tent, robot, and aircraft into one AI-coordinated network. Every load-bearing component exists at TRL 7 to 9 in other industries; the integrated systems stand at TRL 1 to 3. The fastest way forward is a coupon flame test: a laminate sample under metered radiant and direct-flame load, rear-face temperature and harvested watts measured for a few thousand euros, setting the tent wall, the full-scale burn test, and everything above them. A dedicated insurance chapter carries the adoption logic from expected-loss arithmetic to the market re-entry argument, with an instrumented pilot fire season as the underwriting-data instrument. All parameters are theoretical design estimates requiring independent validation. These contributions consolidate and refine three disclosures of March 2026 (two LinkedIn articles, 22 and 24 March; one X publication, 29 March). The fourteen novel contributions are placed on the public record of prior art as of the Zenodo publication date under CC BY-NC-ND 4.0, preventing future patent claims on these specific architectures by any party. Ilir Mehmetaj | Independent Concept Developer | CC BY-NC-ND 4.0 | 2026

Ayala-Godoy, Jairo Arturo · Alvarado-Vargas, Lizbeth · Agosto-Rivera, Jose L.

5 files · 1.6 MB · pngdeclared

BeeChrono is an interactive R Shiny web application for processing, visualizing, cleaning, and analyzing honey bee time data collected across multiple field locations. The application aligns entry and exit records for each individual bee, computes time at the feeder and feeder-to-hive travel time, identifies potential outliers using Tukey's rule, and provides interactive visualizations and exportable datasets in wide and long formats. It also includes final statistical analyses using generalized linear mixed models, including diagnostic checks and tests for differences by location, trip, and temporal variability across locations.

Jin, Yinuo · Myers, Joshua · Rajbhandari, Presha · et al.

1 files · 20 GB · zipdeclared

Dataset overview Pre-aligned multi-modal liver dataset for sample NIH_F5 with 2D (single tissue section) and a 3D (serial sections section_01...08 ) variants. Each variant pairs two spatially co-registered modalities - Xenium (spatial transcriptomics / RNA) and DESI (mass-spectrometry imaging / metabolomics), with cross-modal aligned spatial coordinates stored in the SpatialData .zarr stores ( obsm/xenium_map , obsm/desi_map ). data/LYNX_liver_dataset/ ├── NIH_F5_2D/ # single 2D section │ ├── xenium/ # Xenium (RNA) │ │ └── cell_feature_matrix.h5 # cell × gene counts (.h5ad) │ └── DESI/ # DESI (metabolomics) │ ├── NIH_F5.h5 # procesed pixel × ion intensity matrix │ └── NIH_F5.ome.tif # raw ion-image file │ └── NIH_F5_3D/ # serial 3D stack ├── xenium/ │ └── section_{}/ # one Xenium bundle per section │ └── sdata.zarr └── DESI/ └── section_{}_sdata.zarr # aligned DESI SpatialData store per section Formats: .zarr - SpatialData/OME-Zarr stores (images + AnnData tables with aligned spatial / xenium_map / desi_map coordinates); .h5 - cell×gene (Xenium) or pixel×ion (DESI) matrices; .ome.tif - morphology / DESI ion images.

Fernández-Martínez, Carolina · Siddiqui, Muhammad Shuaib · Daza, Vanesa

1 files · 5.9 MB · zipdeclared

Dataset for "A Knowledge-Based Multi-Agent Framework for Security Control Recommendation" Authors : Carolina Fernández-Martínez (i2CAT / UPF), Shuaib Siddiqui (i2CAT), Vanesa Daza (UPF) This contains the dataset and its generating code, as used in Section 3 of the article "A Knowledge-Based Multi-Agent Framework for Security Control Recommendation", published in Elsevier's Knowledge-Based Systems in 2026. It provides a security control selection based on NIST SP 800-53 rev5 extended catalogue, Multi-Agent Influence Diagram, Game Theory and No-Regret-based utilities. Besides the dataset itself, the scripts used to correlate and curate this data from InfoSec and academic sources are provided, along with such sources and the links to their original sources. The main repository for the dataset and its code used in Section 3 as well as the code used in Section 4 can be found in GitHub . Section overview This work is structured as follows: . ├── dataset_analysis.py ├── dataset_contribution.py ├── dataset_curation.py ├── dataset_helpers.py ├── ground_truth │ ├── manual │ │ ├── csftools_stridelm.csv │ │ └── gemini3pro_secdims_impl.csv │ ├── papers │ │ ├── doi_10_1007_impl_control.csv │ │ ├── doi_10_1016_jisa_2025_104056 │ │ │ ├── doi_10_1016_jisa_2025_104056_raw.csv │ │ │ └── generation_scripts │ │ │ ├── controls_summary.xlsx │ │ │ ├── controls.xlsx │ │ │ ├── domain.py │ │ │ ├── groups.xlsx │ │ │ ├── main.py │ │ │ ├── patterns.gml │ │ │ ├── README.md │ │ │ ├── requirements.txt │ │ │ ├── software.xlsx │ │ │ ├── technique.xlsx │ │ │ ├── ttp-control.xlsx │ │ │ ├── ttps.xlsx │ │ │ └── utils.py │ │ ├── doi_10_1093_cybsec_tyaf020_mapping.csv │ │ └── doi_10_1093_cybsec_tyaf020_scores.csv │ └── standards │ ├── Cybersecurity_Framework_v2-0_Concept_Crosswalk_800-53_5_2_0_draft.csv │ └── NIST_SP-800-53_rev5_catalog.json ├── output │ └── dataset_curated.csv └── README.md The ground truth contains both manual mappings, academic papers and InfoSec standardised data: ground_truth : hosts sources used for the data curation. manual : data extracted manually, whether directly checking sources or iteratively requested to an LLM. csftools_stridelm.csv : manually extracted data from CSF tools indicating the contribution of each control subfamily to mitigate a given STRIDE-LM threat. Each value follows a comma-separated format (e.g. "0,2,3,4,8,12") or use -1 if there is no contribution. gemini3pro_secdims_impl.csv : LLM-parsed data from CSF tools , requesting Gemini 3 Pro to extract data on the security control subfamilies: (1) whether these can be SW-implementable, (2) their coverage to the different Security Dimensions and (3) a text-based justification regarding such coverage. papers : doi_10_1007_impl_control.csv : dataset post-processed from that provided by paper with DOI:10.1007/s10664-025-10649-7 . Basically, this CSV assigns numeric codes to the column "Related to implementation-level feature? (yes/no)" from the tab "SP800 53 rev. 3 (technical cont" of the "2) Systematic Review - Security Standards.xlsx" file in that dataset. This can tabke the following values: 0 (if not SW-implementable), 1 (if SW-implementable), -1 (if undefined in the original dataset) or -2 (if the security control subfamily is not even present in the original dataset). doi_10_1016_jisa_2025_104056 : dataset provided by paper with DOI:10.1016/j.jisa.2025.104056 . generation_scripts : minor modifications to the original scripts to generate their dataset. See README.md inside. doi_10_1093_cybsec_tyaf020_mapping.csv : dataset post-processed from that provided by paper with DOI:10.1093/cybsec/tyaf020 . This CSV contains the table from "Appendix A" of the "Appendix A - D.docx". doi_10_1093_cybsec_tyaf020_scores.csv : dataset post-processed from that provided by paper with DOI:10.1093/cybsec/tyaf020 . This CSV contains the table from "Appendix C" of the "Appendix A - D.docx". standards : Cybersecurity_Framework_v2-0_Concept_Crosswalk_800-53_5_2_0_draft.csv : NIST resource that maps CSF 2.0 subcategories to security control subfamilies from SP 800-53 rev5. NIST_SP-800-53_rev5_catalog.json : NIST SP 800-53 rev5 catalogue of security control subfamilies as obtained from the full catalogue in JSON format. The output folder contains the generated, curated dataset by default. Upon running the scripts below, more files will follow. Generating the dataset and ancillary files 1. Curated dataset The curated dataset is generated under "output/dataset_curated.csv" after running the following script. This file is required for the other scripts. python3 dataset_curation.py 2. Summaries, statistics and figures The analysis on the dataset extracts statistics (in .csv and .tex files) and generates figures (in .pdf and .png) from the dataset: output dataset_curated_ciatunp.{csv,tex} : table with number of control families contribute to each Security Dimension. dataset_curated_stridelm.{csv,tex} : table with number of control families contribute to each STRIDE-LM threat. dataset_curated_score_summary.{csv,tex} : statistics for minimum, average, mode, maximum, standard deviation and inter-quartile range per control family. figures : dataset_curated_ciatunp_contribution_implementable_cats_ids.{pdf,png} : distribution of the contribution of SW-implementable control families (axis Z) and subfamilies (axis Y) towards security dimensions (axis X). dataset_curated_ciatunp_contribution_total_cats_ids.{pdf,png} : distribution of the contribution of all kinds of control families (axis Z) and sub families (axis Y) towards security dimensions (axis X). dataset_curated_score_contribution_total_cats_ids.{pdf,png} : distribution of the score (axis X, in deciles) for all kinds of control families (axis Z) and subfamilies (axis Y). dataset_curated_stridelm_contribution_implementable_cats_ids.{pdf,png} : distribution of the contribution of SW-implementable control families (axis Z) and subfamilies (axis Y) towards mitigating types of STRIDE-LM threats (axis X). dataset_curated_stridelm_contribution_total_cats_ids.{pdf,png} : distribution of the contribution of all kinds of control families (axis Z) and subfamilies (axis Y) towards mitigating types of STRIDE-LM threats (axis X). python3 dataset_analysis.py Besides this, the following script quantifies the contribution of the academic datasets and sources used during the process, generating these files: output dataset_curated_score_summary_contribution_ds_imp_{all,top}.tex : table comparing the score of each of the top SW-implementable control subfamilies across the curated dataset ("Total" column) and the datasets used from academic papers (other columns). dataset_curated_score_summary_contribution_ds_tot_{all,top}.tex : table comparing the score of each of the top control subfamilies of all kinds across the curated dataset ("Total" column) and the datasets used from academic papers (other columns). dataset_curated_score_stats_imp_{all,top}.tex : table with statistics on the amount and average score for both all and top SW-implementable control subfamilies. dataset_curated_score_stats_mt0_imp_{all,top}.tex : table with statistics on the amount and average score for both all and the top SW-implementable control subfamilies whose score is more than 0. dataset_curated_score_stats_tot_{all,top}.tex : table with statistics on the amount and average score for both all and top control subfamilies of all kinds. dataset_curated_score_stats_mt0_tot_{all,top}.tex : table with statistics on the amount and average score for both all and the top control subfamilies of all kinds whose score is more than 0. dataset_curated_summary_{all,top}.xlsx : sheet files with multiple tabs to determine grouping and statistical data, such as the score of the top security control subfamilies and the score of their counterparts in the used datasets. Tabs "contribution_ds_tot" and "contribution_ds_imp" are the most relevant, performing these calculation for all kinds and SW-implementable security control subfamilies, respectively. In all cases, the first file considers all control subfamilies, whereas the second considers the top 20 ones. Note that this script has a specific pre-requirement that must be installed to generate the excel file. sudo apt install python3-openpyxl python3 dataset_contribution.py Licence This work is dual-licenced according to the type of resource: Datasets: CC BY-NC 4.0 Code: GNU AGPL 3.0 Funding This work was supported by the grants COALESCE-6G PID2024-163028OB-I00, funded by MICIU/AEI/10.13039/501100011033/FEDER, EU; and AEI-PID2021-128521OB-I00, funded by the Spanish Recovery, Transformation and Resilience Plan through the European Union (Next Generation).

Kirjonen, Miikka · Kirjonen, Miikka

33 files · 5.5 MB · pngdeclared

The purpose of this manuscript is to formalise the point at which a seam-bearing support becomes a loop-bearing support. This distinction is essential. A divider, ridge, throat, caustic, or mirror trace can be visually compelling, but visibility is not yet transport. A visible loop can be drawn around nearly any sufficiently structured image, but a drawn loop is not yet a Wilson memory object. A shell can look cyclic, ternary, heptagonal, or recurrent, but visible sectoring is not yet a carrier law. The present paper therefore begins by refusing the shortcut from morphology to ontology. It asks instead for a declared sequence of admissibility: first the mirror-involution grammar, then the no-cancellation certificate, then binary seam admission, then post-seam loop support, then closed Wilson memory, then page continuation, then homebound closure, and only finally local ternary refinement. This order matters because RSM's seam programme has reached a point where several previously separate threads now meet. The first thread is the mirror-involution seam: a two-sheet comparison carrier, a quotient projection, an order-two branch exchange, and an even-channel public divider. The second thread is loop inheritance: once the seam gate has passed, the post-seam support admits closed reinjection loops whose holonomy is stable and whose memory is not attached to a local branch but to the loop as a whole. The third thread is the lattice continuum: once a closed loop carries Wilson memory, one must ask how a page of memory relates to the next, how the continuation coordinate is transported, and how local ternary public events may arise without altering the underlying binary seam law. The novelty of the present paper lies in connecting these three threads without changing their order. The mirror-involution grammar is binary. The post-seam loop is closed and Wilson-bearing. The lattice is a continuation law on that loop-capable support. The local ternary law is a refinement, not a replacement. This resolves a tension that has accompanied earlier lattice language: if a visible shell was introduced too early, the lattice risked sounding like a primitive geometry. If the ternary cycle was introduced too early, the public event law risked sounding like a universal carrier law. The present paper avoids both problems. It places the lattice after the seam gate and places the ternary event after homebound closure. The deepest algebraic reason for this order is the no-cancellation principle. In a mirror-involution setting, arbitrary sign cancellation can erase the very event that the seam certificate is meant to classify. A pre-seam carrier must therefore be treated as an oriented comparison support whose local samples remain in a coherent sign cell until a declared boundary is reached. This is where the Grassmannian picture becomes useful, but only as a certificate layer. The positive or totally non-negative Grassmannian does not define the vortex tube, the Wilson loop, or the ternary event. It supplies the finite-dimensional pre-seam audit: it tells us whether local orientation data can be compared without hidden cancellation, and it gives a precise language for the boundary at which a graph-like or sheet-like support ceases to be the correct chart. After that boundary, the correct observable changes. The support is no longer primarily a divider-bearing graph; it is a loop-capable neighbourhood of the certified seam. The mature object is then the closed reinjection loop with a Wilson holonomy. This is the conceptual pivot of the manuscript. Before the seam, the question is whether the local support can be certified. At the seam, the question is whether the mirror and residual gates pass. After the seam, the question is whether the inherited loop phase is stable. The loop is not a left branch and not a right branch. It is the quotient memory object created when the lifted return legs project to one closed public transport class.

Yuan, Qianmu · Zhu, Mingming

1 files · 456 MB · zipdeclared

This ZIP file contains: 1. The DeltaCata-DB dataset preprocessing scripts and the processed dataset. 2. The source code and the trained model checkpoints of DeltaCata.

Akinshin, Andrey

1 files · 2.1 MB · zipdeclared

This manual presents a toolkit of statistical procedures that provide reliable results across diverse real-world distributions, with ready-to-use implementations and detailed explanations. The toolkit consists of renamed, recombined, and refined versions of existing methods. Written for software developers, mathematicians, and LLMs.

Seefelder, Manuel Thomas

1 files · 147 MB · zipdeclared

This record contains the derived data and analysis code accompanying the manuscript: Seefelder, M. A meta-analysis resolves the huntingtin interactome into coactivator losses and a robust proteostatic and synaptic gain network (2026). The study integrates four previously published huntingtin (HTT) affinity-proteomics datasets and contrasts wild-type and polyglutamine-expanded HTT within a single Bayesian differential-interactomics model (BayesInteractomics), assigning every protein a calibrated, condition-dependent interaction call. Of 4,338 proteins evaluated, 275 are condition-dependent, describing a bidirectional remodelling of the HTT interactome - a loss of transcription-activation coactivators (Mediator, the ASCOM H3K4-methyltransferase, CREBBP, CDK9) and a gain of proteostatic and synaptic contacts (the 26S proteasome, HSP70 chaperones, synaptic and actin-cytoskeletal networks), around an intact chaperonin-HAP40 core. Contents Source differential-interactome table (differential_results.xlsx, all.csv, HTT_unchanged.csv) - per-protein posterior interaction probabilities, differential calls and false-discovery rates for wild-type and mutant HTT. Call-specific protein lists (gene-symbol lists for each differential class). Derived over-representation / enrichment results. Per-figure source data for all main and supplementary figures. A snapshot of the analysis and figure-generation code used to produce all results and figures. A snapshot of the BayesInteractomics.jl framework version used for interaction scoring. Raw data provenance This is a re-analysis of published datasets. The primary (raw) affinity-proteomics data are not re-hosted here and remain available from the original publications and their associated repositories: Greco et al. (2022), Justice et al. (2025), Sap et al. (2021) and Gutiérrez-García et al. (2023). Reproducibility Running the deposited code against the deposited derived data regenerates the figures and tables of the manuscript. The BayesInteractomics method is developed openly at https://github.com/ma-seefelder/BayesInteractomics.jl and described in full in a companion methods paper (Seefelder, submitted).

Sánchez-Pinillos, Martina · Fortin, Marie-Josée · Messier, Christian · et al.

1 files · 173 MB · zipdeclared

Code and data for: Sánchez-Pinillos, M., Fortin, M.-J., Messier, C., Kneeshaw, D. 2026. Forecasting ecological trajectories from ecological dynamic regimes to improve resilience analysis. Methods in Ecology and Evolution.