main: keep only what reproduces the manuscript; everything else lives on dev
Removed from main (all preserved on the dev branch): the arXiv build and
its sources, design documents (blueprint, results summary, review responses,
essay drafts), tasks/ and CLAUDE.md, the cover letter and reference tooling,
two unused manuscript figures, and every experiment that feeds no figure or
number in the paper: the collapse null, the sexual-vs-asexual lineage, the
NK speciation variant, the 0.5B single-seed LLM prototypes, the compose and
society experiments with their calibration and pilot runs, and their
configs, runners, tests, figure scripts and PBS jobs. Their result bundles
are moved to results/_archive/ (ignored) so the parquets stay on disk.
Also: plot_llm_speciation reads the s{seed}/ layout; the mating-breadth
plot writes under its bundle name; Makefile targets reduced to the kept
experiments; REPRODUCING.md and README point to dev for the rest.
Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01Y64o8FKP7rCuXzC48pxpMm
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1 OK 10.48550/arXiv.2508.06811 Anatomy of a Machine Learning Ecosystem: 2 Million Models on Hug in manuscript
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2 OK 10.48550/arXiv.2405.18432 Unsupervised Model Tree Heritage Recovery in manuscript
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3 OK 10.48550/arXiv.2402.00699 PeaTMOSS: A Dataset and Initial Analysis of Pre-Trained Models i in manuscript
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4 OK 10.48550/arXiv.2306.01708 TIES-Merging: Resolving Interference When Merging Models in manuscript
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5 OK 10.1038/s42256-024-00975-8 Evolutionary optimization of model merging recipes crossref (matched: Evolutionary optimization of model merging recipes)
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6 OK 10.48550/arXiv.2403.13257 Arcee's MergeKit: A Toolkit for Merging Large Language Models in manuscript
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7 OK 10.48550/arXiv.2408.07666 Model Merging in LLMs, MLLMs, and Beyond: Methods, Theories, App in manuscript
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8 OK 10.48550/arXiv.2503.01155 Nature-Inspired Population-Based Evolution of Large Language Mod in manuscript
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9 OK 10.48550/arXiv.2508.16204 Competition and Attraction Improve Model Fusion in manuscript
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10 OK 10.48550/arXiv.2501.05707 Multiagent Finetuning: Self Improvement with Diverse Reasoning C in manuscript
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11 OK 10.48550/arXiv.2406.11704 Nemotron-4 340B Technical Report in manuscript
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12 OK 10.48550/arXiv.2412.08905 Phi-4 Technical Report in manuscript
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13 OK 10.48550/arXiv.2212.10560 Self-Instruct: Aligning Language Models with Self-Generated Inst in manuscript
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14 OK 10.48550/arXiv.2401.05749 A Shocking Amount of the Web is Machine Translated: Insights fro in manuscript
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15 OK 10.48550/arXiv.2403.07183 Monitoring AI-Modified Content at Scale: A Case Study on the Imp in manuscript
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16 OK 10.48550/arXiv.2211.04325 Will we run out of data? Limits of LLM scaling based on human-ge in manuscript
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17 OK 10.1038/s41562-023-01742-2 Machine culture verified by hand
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18 OK 10.48550/arXiv.2304.03442 Generative Agents: Interactive Simulacra of Human Behavior in manuscript
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19 OK 10.48550/arXiv.2402.01680 Large Language Model based Multi-Agents: A Survey of Progress an in manuscript
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20 OK 10.48550/arXiv.2509.10147 Virtual Agent Economies in manuscript
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21 OK 10.1038/s41586-024-07566-y AI models collapse when trained on recursively generated data crossref (matched: AI models collapse when trained on recursively generated data)
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22 OK 10.1371/journal.pcbi.1002510 Structural Drift: The Population Dynamics of Sequential Learning crossref (matched: Structural Drift: The Population Dynamics of Sequential Learning)
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23 OK 10.48550/arXiv.2604.08554 Drift and selection in LLM text ecosystems in manuscript
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24 OK 10.48550/arXiv.2509.20101 First-Extinction Law for Resampling Processes in manuscript
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25 OK 10.48550/arXiv.2407.17493 Model Collapse in the Self-Consuming Chain of Diffusion Finetuni in manuscript
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26 OK 10.1016/s0079-7421(08)60536-8 Catastrophic Interference in Connectionist Networks: The Sequent crossref (matched: Catastrophic Interference in Connectionist Networks: The Sequential Le)
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27 OK 10.1016/s1364-6613(99)01294-2 Catastrophic forgetting in connectionist networks crossref (matched: Catastrophic forgetting in connectionist networks)
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28 OK 10.1016/0027-5107(64)90047-8 The relation of recombination to mutational advance crossref (matched: The relation of recombination to mutational advance)
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29 OK 10.48550/arXiv.2510.16657 Escaping Model Collapse via Synthetic Data Verification: Near-te in manuscript
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30 OK 10.48550/arXiv.2404.01413 Is Model Collapse Inevitable? Breaking the Curse of Recursion by in manuscript
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31 OK 10.1093/genetics/16.2.97 EVOLUTION IN MENDELIAN POPULATIONS crossref (matched: EVOLUTION IN MENDELIAN POPULATIONS)
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32 OK 10.1046/j.1523-1739.1996.10061509.x The One‐Migrant‐per‐Generation Rule in Conservation and Manageme crossref (matched: The One‐Migrant‐per‐Generation Rule in Conservation and Management)
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33 HAND (pre-DOI source) [Review of] The Origin of Species written by hand
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34 OK 10.48550/arXiv.2411.02207 Collective Model Intelligence Requires Compatible Specialization in manuscript
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35 HAND (pre-DOI source) The Genetical Theory of Natural Selection written by hand
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36 OK 10.1086/280418 Some Genetic Aspects of Sex crossref (matched: Some Genetic Aspects of Sex)
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37 OK 10.48550/arXiv.2106.09685 LoRA: Low-Rank Adaptation of Large Language Models in manuscript
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38 OK 10.1016/s0022-5193(87)80029-2 Towards a general theory of adaptive walks on rugged landscapes crossref (matched: Towards a general theory of adaptive walks on rugged landscapes)
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39 HAND (pre-DOI source) Coadaptation and outbreeding depression written by hand
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40 OK 10.1162/evco_a_00025 Abandoning Objectives: Evolution Through the Search for Novelty crossref (matched: Abandoning Objectives: Evolution Through the Search for Novelty Alone)
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41 OK 10.48550/arXiv.2503.05683 WikiBigEdit: Understanding the Limits of Lifelong Knowledge Edit in manuscript
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42 OK 10.48550/arXiv.2502.04390 In Praise of Stubbornness: An Empirical Case for Cognitive-Disso in manuscript
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43 OK 10.48550/arXiv.2607.09202 Interference and Retention in Continual Learning in manuscript
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44 OK 10.1017/s0016672300033140 A general model for the evolution of recombination crossref (matched: A general model for the evolution of recombination)
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45 OK 10.1006/tpbi.1997.1301 Deleterious Mutations, Variable Epistatic Interactions, and the crossref (matched: Deleterious Mutations, Variable Epistatic Interactions, and the Evolut)
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46 OK 10.1038/nrg761 Resolving the paradox of sex and recombination crossref (matched: Resolving the paradox of sex and recombination)
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47 OK 10.1093/genetics/117.3.559 Selection, Generalized Transmission and the Evolution of Modifie crossref (matched: Selection, Generalized Transmission and the Evolution of Modifier Gene)
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48 OK 10.1093/genetics/139.4.1805 The population genetics of speciation: the evolution of hybrid i crossref (matched: The population genetics of speciation: the evolution of hybrid incompa)
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49 OK 10.1111/j.0014-3820.2001.tb00628.x THE EVOLUTION OF POSTZYGOTIC ISOLATION: ACCUMULATING DOBZHANSKY- crossref (matched: THE EVOLUTION OF POSTZYGOTIC ISOLATION: ACCUMULATING DOBZHANSKY-MULLER)
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50 OK 10.48550/arXiv.2209.04836 Git Re-Basin: Merging Models modulo Permutation Symmetries in manuscript
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51 OK 10.48550/arXiv.2606.23607 Scaling Linear Mode Connectivity and Merging to Billion Paramete in manuscript
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52 OK 10.48550/arXiv.2410.12766 The Non-Local Model Merging Problem: Permutation Symmetries and in manuscript
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53 OK 10.48550/arXiv.2607.11997 Are we Merging the Right Models? Impact of Expert Training Durat in manuscript
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54 OK 10.48550/arXiv.2601.22285 Demystifying Mergeability: Interpretable Properties to Predict M in manuscript
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55 OK 10.48550/arXiv.2205.12393 Fine-tuned Language Models are Continual Learners in manuscript
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56 OK 10.48550/arXiv.2403.08763 Simple and Scalable Strategies to Continually Pre-train Large La in manuscript
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57 OK 10.1080/09540099550039318 Catastrophic Forgetting, Rehearsal and Pseudorehearsal crossref (matched: Catastrophic Forgetting, Rehearsal and Pseudorehearsal)
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58 OK 10.48550/arXiv.1705.08690 Continual Learning with Deep Generative Replay in manuscript
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59 OK 10.48550/arXiv.2406.07515 Beyond Model Collapse: Scaling Up with Synthesized Data Requires in manuscript
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60 OK 10.48550/arXiv.1606.04671 Progressive Neural Networks in manuscript
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61 OK 10.48550/arXiv.2405.09673 LoRA Learns Less and Forgets Less in manuscript
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62 OK 10.1037/0033-295x.102.3.419 Why there are complementary learning systems in the hippocampus crossref (matched: Why there are complementary learning systems in the hippocampus and ne)
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63 OK 10.1016/j.tics.2016.05.004 What Learning Systems do Intelligent Agents Need? Complementary crossref (matched: What Learning Systems do Intelligent Agents Need? Complementary Learni)
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64 OK 10.48550/arXiv.1805.06370 Progress & Compress: A scalable framework for continual lear verified by hand
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65 OK 10.48550/arXiv.2212.04089 Editing Models with Task Arithmetic in manuscript
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66 OK 10.48550/arXiv.2407.06322 MagMax: Leveraging Model Merging for Seamless Continual Learning in manuscript
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67 OK 10.48550/arXiv.2407.08699 Mitigating Catastrophic Forgetting in Language Transfer via Mode in manuscript
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68 OK 10.48550/arXiv.2412.06712 How to Merge Your Multimodal Models Over Time? in manuscript
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69 OK 10.48550/arXiv.1812.05159 An Empirical Study of Example Forgetting during Deep Neural Netw in manuscript
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70 OK 10.48550/arXiv.2211.08411 Large Language Models Struggle to Learn Long-Tail Knowledge in manuscript
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71 OK 10.48550/arXiv.2210.00266 Long-Tailed Class Incremental Learning in manuscript
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72 OK 10.48550/arXiv.2309.10105 Understanding Catastrophic Forgetting in Language Models via Imp in manuscript
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73 OK 10.48550/arXiv.2311.03099 Language Models are Super Mario: Absorbing Abilities from Homolo in manuscript
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74 OK 10.48550/arXiv.2203.05482 Model soups: averaging weights of multiple fine-tuned models imp in manuscript
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75 OK 10.48550/arXiv.2603.09463 An Empirical Study and Theoretical Explanation on Task-Level Mod in manuscript
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76 OK 10.48550/arXiv.2506.14126 From Memorization to Parameter Interference: How Overtraining Ex in manuscript
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77 OK 10.1145/2934662 Sex as an algorithm crossref (matched: Sex as an algorithm)
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78 OK 10.48550/arXiv.2311.09807 The Curious Decline of Linguistic Diversity: Training Language M in manuscript
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79 OK 10.48550/arXiv.2309.05196 Does Writing with Language Models Reduce Content Diversity? in manuscript
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80 OK 10.1126/sciadv.adn5290 Generative AI enhances individual creativity but reduces the col crossref (matched: Generative AI enhances individual creativity but reduces the collectiv)
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1 OK 10.48550/arXiv.2508.06811 Anatomy of a Machine Learning Ecosystem: 2 Million Models on Hug in manuscript
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2 OK 10.48550/arXiv.2405.18432 Unsupervised Model Tree Heritage Recovery in manuscript
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3 OK 10.48550/arXiv.2402.00699 PeaTMOSS: A Dataset and Initial Analysis of Pre-Trained Models i in manuscript
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4 OK 10.48550/arXiv.2306.01708 TIES-Merging: Resolving Interference When Merging Models in manuscript
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5 OK 10.1038/s42256-024-00975-8 Evolutionary optimization of model merging recipes crossref (matched: Evolutionary optimization of model merging recipes)
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6 OK 10.48550/arXiv.2403.13257 Arcee's MergeKit: A Toolkit for Merging Large Language Models in manuscript
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7 OK 10.48550/arXiv.2408.07666 Model Merging in LLMs, MLLMs, and Beyond: Methods, Theories, App in manuscript
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8 OK 10.48550/arXiv.2503.01155 Nature-Inspired Population-Based Evolution of Large Language Mod in manuscript
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9 OK 10.48550/arXiv.2508.16204 Competition and Attraction Improve Model Fusion in manuscript
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10 OK 10.48550/arXiv.2501.05707 Multiagent Finetuning: Self Improvement with Diverse Reasoning C in manuscript
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11 OK 10.48550/arXiv.2406.11704 Nemotron-4 340B Technical Report in manuscript
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12 OK 10.48550/arXiv.2412.08905 Phi-4 Technical Report in manuscript
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13 OK 10.48550/arXiv.2212.10560 Self-Instruct: Aligning Language Models with Self-Generated Inst in manuscript
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14 OK 10.48550/arXiv.2401.05749 A Shocking Amount of the Web is Machine Translated: Insights fro in manuscript
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15 OK 10.48550/arXiv.2403.07183 Monitoring AI-Modified Content at Scale: A Case Study on the Imp in manuscript
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16 OK 10.48550/arXiv.2211.04325 Will we run out of data? Limits of LLM scaling based on human-ge in manuscript
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17 OK 10.1038/s41562-023-01742-2 Machine culture verified by hand
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18 OK 10.48550/arXiv.2304.03442 Generative Agents: Interactive Simulacra of Human Behavior in manuscript
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19 OK 10.48550/arXiv.2402.01680 Large Language Model based Multi-Agents: A Survey of Progress an in manuscript
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20 OK 10.48550/arXiv.2509.10147 Virtual Agent Economies in manuscript
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21 OK 10.1038/s41586-024-07566-y AI models collapse when trained on recursively generated data crossref (matched: AI models collapse when trained on recursively generated data)
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22 OK 10.1371/journal.pcbi.1002510 Structural Drift: The Population Dynamics of Sequential Learning crossref (matched: Structural Drift: The Population Dynamics of Sequential Learning)
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23 OK 10.48550/arXiv.2604.08554 Drift and selection in LLM text ecosystems in manuscript
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24 OK 10.48550/arXiv.2509.20101 First-Extinction Law for Resampling Processes in manuscript
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25 OK 10.48550/arXiv.2407.17493 Model Collapse in the Self-Consuming Chain of Diffusion Finetuni in manuscript
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26 OK 10.1016/s0079-7421(08)60536-8 Catastrophic Interference in Connectionist Networks: The Sequent crossref (matched: Catastrophic Interference in Connectionist Networks: The Sequential Le)
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27 OK 10.1016/s1364-6613(99)01294-2 Catastrophic forgetting in connectionist networks crossref (matched: Catastrophic forgetting in connectionist networks)
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28 OK 10.1016/0027-5107(64)90047-8 The relation of recombination to mutational advance crossref (matched: The relation of recombination to mutational advance)
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29 OK 10.48550/arXiv.2510.16657 Escaping Model Collapse via Synthetic Data Verification: Near-te in manuscript
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30 OK 10.48550/arXiv.2404.01413 Is Model Collapse Inevitable? Breaking the Curse of Recursion by in manuscript
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31 OK 10.1093/genetics/16.2.97 EVOLUTION IN MENDELIAN POPULATIONS crossref (matched: EVOLUTION IN MENDELIAN POPULATIONS)
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32 OK 10.1046/j.1523-1739.1996.10061509.x The One‐Migrant‐per‐Generation Rule in Conservation and Manageme crossref (matched: The One‐Migrant‐per‐Generation Rule in Conservation and Management)
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33 HAND (pre-DOI source) [Review of] The Origin of Species written by hand
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34 OK 10.48550/arXiv.2411.02207 Collective Model Intelligence Requires Compatible Specialization in manuscript
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35 HAND (pre-DOI source) The Genetical Theory of Natural Selection written by hand
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36 OK 10.1086/280418 Some Genetic Aspects of Sex crossref (matched: Some Genetic Aspects of Sex)
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37 OK 10.48550/arXiv.2106.09685 LoRA: Low-Rank Adaptation of Large Language Models in manuscript
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38 OK 10.1016/s0022-5193(87)80029-2 Towards a general theory of adaptive walks on rugged landscapes crossref (matched: Towards a general theory of adaptive walks on rugged landscapes)
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39 HAND (pre-DOI source) Coadaptation and outbreeding depression written by hand
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40 OK 10.1162/evco_a_00025 Abandoning Objectives: Evolution Through the Search for Novelty crossref (matched: Abandoning Objectives: Evolution Through the Search for Novelty Alone)
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41 OK 10.48550/arXiv.2503.05683 WikiBigEdit: Understanding the Limits of Lifelong Knowledge Edit in manuscript
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42 OK 10.48550/arXiv.2502.04390 In Praise of Stubbornness: An Empirical Case for Cognitive-Disso in manuscript
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43 OK 10.48550/arXiv.2607.09202 Interference and Retention in Continual Learning in manuscript
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44 OK 10.1017/s0016672300033140 A general model for the evolution of recombination crossref (matched: A general model for the evolution of recombination)
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45 OK 10.1006/tpbi.1997.1301 Deleterious Mutations, Variable Epistatic Interactions, and the crossref (matched: Deleterious Mutations, Variable Epistatic Interactions, and the Evolut)
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46 OK 10.1038/nrg761 Resolving the paradox of sex and recombination crossref (matched: Resolving the paradox of sex and recombination)
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47 OK 10.1093/genetics/117.3.559 Selection, Generalized Transmission and the Evolution of Modifie crossref (matched: Selection, Generalized Transmission and the Evolution of Modifier Gene)
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48 OK 10.1093/genetics/139.4.1805 The population genetics of speciation: the evolution of hybrid i crossref (matched: The population genetics of speciation: the evolution of hybrid incompa)
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49 OK 10.1111/j.0014-3820.2001.tb00628.x THE EVOLUTION OF POSTZYGOTIC ISOLATION: ACCUMULATING DOBZHANSKY- crossref (matched: THE EVOLUTION OF POSTZYGOTIC ISOLATION: ACCUMULATING DOBZHANSKY-MULLER)
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50 OK 10.48550/arXiv.2209.04836 Git Re-Basin: Merging Models modulo Permutation Symmetries in manuscript
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51 OK 10.48550/arXiv.2606.23607 Scaling Linear Mode Connectivity and Merging to Billion Paramete in manuscript
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52 OK 10.48550/arXiv.2410.12766 The Non-Local Model Merging Problem: Permutation Symmetries and in manuscript
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53 OK 10.48550/arXiv.2607.11997 Are we Merging the Right Models? Impact of Expert Training Durat in manuscript
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54 OK 10.48550/arXiv.2601.22285 Demystifying Mergeability: Interpretable Properties to Predict M in manuscript
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55 OK 10.48550/arXiv.2205.12393 Fine-tuned Language Models are Continual Learners in manuscript
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56 OK 10.48550/arXiv.2403.08763 Simple and Scalable Strategies to Continually Pre-train Large La in manuscript
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57 OK 10.1080/09540099550039318 Catastrophic Forgetting, Rehearsal and Pseudorehearsal crossref (matched: Catastrophic Forgetting, Rehearsal and Pseudorehearsal)
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58 OK 10.48550/arXiv.1705.08690 Continual Learning with Deep Generative Replay in manuscript
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59 OK 10.48550/arXiv.2406.07515 Beyond Model Collapse: Scaling Up with Synthesized Data Requires in manuscript
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60 OK 10.48550/arXiv.1606.04671 Progressive Neural Networks in manuscript
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61 OK 10.48550/arXiv.2405.09673 LoRA Learns Less and Forgets Less in manuscript
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62 OK 10.1037/0033-295x.102.3.419 Why there are complementary learning systems in the hippocampus crossref (matched: Why there are complementary learning systems in the hippocampus and ne)
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63 OK 10.1016/j.tics.2016.05.004 What Learning Systems do Intelligent Agents Need? Complementary crossref (matched: What Learning Systems do Intelligent Agents Need? Complementary Learni)
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64 OK 10.48550/arXiv.1805.06370 Progress & Compress: A scalable framework for continual lear verified by hand
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65 OK 10.48550/arXiv.2212.04089 Editing Models with Task Arithmetic in manuscript
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66 OK 10.48550/arXiv.2407.06322 MagMax: Leveraging Model Merging for Seamless Continual Learning in manuscript
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67 OK 10.48550/arXiv.2407.08699 Mitigating Catastrophic Forgetting in Language Transfer via Mode in manuscript
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68 OK 10.48550/arXiv.2412.06712 How to Merge Your Multimodal Models Over Time? in manuscript
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69 OK 10.48550/arXiv.1812.05159 An Empirical Study of Example Forgetting during Deep Neural Netw in manuscript
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70 OK 10.48550/arXiv.2211.08411 Large Language Models Struggle to Learn Long-Tail Knowledge in manuscript
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71 OK 10.48550/arXiv.2210.00266 Long-Tailed Class Incremental Learning in manuscript
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72 OK 10.48550/arXiv.2309.10105 Understanding Catastrophic Forgetting in Language Models via Imp in manuscript
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73 OK 10.48550/arXiv.2311.03099 Language Models are Super Mario: Absorbing Abilities from Homolo in manuscript
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74 OK 10.48550/arXiv.2203.05482 Model soups: averaging weights of multiple fine-tuned models imp in manuscript
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75 OK 10.48550/arXiv.2603.09463 An Empirical Study and Theoretical Explanation on Task-Level Mod in manuscript
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76 OK 10.48550/arXiv.2506.14126 From Memorization to Parameter Interference: How Overtraining Ex in manuscript
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77 OK 10.1145/2934662 Sex as an algorithm crossref (matched: Sex as an algorithm)
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78 OK 10.48550/arXiv.2311.09807 The Curious Decline of Linguistic Diversity: Training Language M in manuscript
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79 OK 10.48550/arXiv.2309.05196 Does Writing with Language Models Reduce Content Diversity? in manuscript
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80 OK 10.1126/sciadv.adn5290 Generative AI enhances individual creativity but reduces the col crossref (matched: Generative AI enhances individual creativity but reduces the collectiv)
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