MemCog: From Memory-as-Tool to Memory-as-Cognition in Conversational Agents

Existing agent memory systems universally follow what we term a Memory-as-Tool paradigm where a single query triggers one-shot retrieval of flat passage lists, suffering from passive invocation, reasoning-retrieval decoupling, and structural mismatch between retrieved fragments and the agent's navigational needs. We propose MemCog, a Memory-as-Cognition system that makes memory access an integral part of the reasoning process. MemCog organizes user knowledge as Navigable Memory Store with associative link graphs, exposes Cross-Dimensional Navigation Interface for multi-step reasoning-driven traversal, and employs Proactive Reasoning Protocol that drives agents to spontaneously initiate memory exploration from conversational context. We additionally construct ProactiveMemBench, the first benchmark for evaluating proactive memory triggering. Experiments show that MemCog achieves state-of-the-art on passive QA benchmarks (92.98 on LoCoMo, 95.8 on LongMemEval) while substantially outperforming baselines on ProactiveMemBench, demonstrating the advantage of Memory-as-Cognition.

Semantic Flow Regularization: Teaching LLMs to Generate Diverse Yet Coherent Responses

When large language models are fine-tuned to generate persona- or tone-conditioned responses, their output diversity is severely limited--a failure we term Cross-Style Collapse. We trace this collapse to the cross-entropy objective, which under shared representations tends to suppress diverse continuations. We propose Semantic Flow Regularization (SFR), a lightweight auxiliary objective that supervises the backbone with continuous sentence-encoder embeddings of future segments via conditional flow matching. The stochastic flow source preserves multi-modality by construction; the flow-matching head is discarded at inference, adding zero deployment cost. On a large-scale industrial dialogue dataset (Qwen3-32B, 9 personas), SFR improves output diversity, style fidelity, and response quality over SFT. We further validate on the public LiveCodeBench-v5 (Qwen2.5-Coder-7B-Instruct), where SFR consistently improves pass@k, confirming generality beyond stylized dialogue. A controlled comparison on MBPP reveals Multi-Token Prediction to be a degenerate special case of SFR.

PARM: Pipeline-Adapted Reward Model

Reward models (RMs) are central to aligning large language models (LLMs) with human preferences, powering RLHF and advanced decoding strategies. While most prior work focuses on single-step generation, real-world applications increasingly adopt multi-stage LLM pipelines, where effective reward guidance remains underexplored. We investigate this through code generation for combinatorial optimization, constructing a pipeline that integrates reward models into both formulation and solution stages. We identify a critical challenge: inconsistency between reward model predictions and actual pipeline execution outcomes. To address this, we propose the Pipeline-Adapted Reward Model (PARM), which leverages pipeline-specific data and direct preference optimization to align rewards with downstream feedback. We instantiate PARM as a two-stage pipeline (formulation -> code generation) and evaluate it on four public optimization benchmarks, measuring execution rate and solving accuracy against baselines and sampling methods. A supplementary cross-domain experiment on GSM8K assesses transferability. Results demonstrate that PARM consistently improves pipeline output quality and stability, providing new insights into reward modeling for multi-stage LLM reasoning.

HMD-AMP: Protein Language-Powered Hierarchical Multi-label Deep Forest for Annotating Antimicrobial Peptides

Identifying the targets of an antimicrobial peptide is a fundamental step in studying the innate immune response and combating antibiotic resistance, and more broadly, precision medicine and public health. There have been extensive studies on the statistical and computational approaches to identify (i) whether a peptide is an antimicrobial peptide (AMP) or a non-AMP and (ii) which targets are these sequences effective to (Gram-positive, Gram-negative, etc.). Despite the existing deep learning methods on this problem, most of them are unable to handle the small AMP classes (anti-insect, anti-parasite, etc.). And more importantly, some AMPs can have multiple targets, which the previous methods fail to consider. In this study, we build a diverse and comprehensive multi-label protein sequence database by collecting and cleaning amino acids from various AMP databases. To generate efficient representations and features for the small classes dataset, we take advantage of a protein language model trained on 250 million protein sequences. Based on that, we develop an end-to-end hierarchical multi-label deep forest framework, HMD-AMP, to annotate AMP comprehensively. After identifying an AMP, it further predicts what targets the AMP can effectively kill from eleven available classes. Extensive experiments suggest that our framework outperforms state-of-the-art models in both the binary classification task and the multi-label classification task, especially on the minor classes.The model is robust against reduced features and small perturbations and produces promising results. We believe HMD-AMP contributes to both the future wet-lab investigations of the innate structural properties of different antimicrobial peptides and build promising empirical underpinnings for precise medicine with antibiotics.

MRI Cross-Modality NeuroImage-to-NeuroImage Translation

We present a cross-modality generation framework that learns to generate translated modalities from given modalities in MR images without real acquisition. Our proposed method performs NeuroImage-to-NeuroImage translation (abbreviated as N2N) by means of a deep learning model that leverages conditional generative adversarial networks (cGANs). Our framework jointly exploits the low-level features (pixel-wise information) and high-level representations (e.g. brain tumors, brain structure like gray matter, etc.) between cross modalities which are important for resolving the challenging complexity in brain structures. Our framework can serve as an auxiliary method in clinical diagnosis and has great application potential. Based on our proposed framework, we first propose a method for cross-modality registration by fusing the deformation fields to adopt the cross-modality information from translated modalities. Second, we propose an approach for MRI segmentation, translated multichannel segmentation (TMS), where given modalities, along with translated modalities, are segmented by fully convolutional networks (FCN) in a multichannel manner. Both of these two methods successfully adopt the cross-modality information to improve the performance without adding any extra data. Experiments demonstrate that our proposed framework advances the state-of-the-art on five brain MRI datasets. We also observe encouraging results in cross-modality registration and segmentation on some widely adopted brain datasets. Overall, our work can serve as an auxiliary method in clinical diagnosis and be applied to various tasks in medical fields. Keywords: image-to-image, cross-modality, registration, segmentation, brain MRI