Daily Papers

Instruction finetuning on a variety of image-text instruction data is the key to obtaining a versatile Multimodal Large Language Model (MLLM), and different configurations of the instruction data can lead to finetuned models with different capabilities. However, we have discovered that data conflicts are inevitable when mixing instruction data from distinct domains, which can result in performance drops for tasks of a specific domain. To address this issue, we propose to apply an efficient Mixture of Experts (MoE) design, which is a sparse Mixture of LoRA Experts (MoLE) for instruction finetuning MLLMs. Within the Transformer layers, we extend the popular Low-Rank Adaption (LoRA) method by creating a set of LoRA experts specifically for the MLP layer, and route each token to the top-1 expert based on a routing function, allowing adaptive choices for tokens from different domains. Since the LoRA experts are sparsely activated, the training and inference cost are kept roughly constant compared to the original LoRA method. By replacing the plain-LoRA of LLaVA-1.5 with our MoE design, our final model is named LLaVA-MoLE. Extensive experiments proved that LLaVA-MoLE effectively mitigates the data conflict issue when mixing multiple distinct instruction datasets with various configurations, and achieves consistent performance gains over the strong plain-LoRA baselines. Most importantly, on the mixed datasets, LLaVA-MoLE can even outperform the plain-LoRA baseline trained with twice the samples.

Large language models (LLMs) have revolutionized natural language processing (NLP) with impressive performance across various text-based tasks. However, the extension of text-dominant LLMs to with speech generation tasks remains under-explored. In this work, we introduce a text-to-speech (TTS) system powered by a fine-tuned Llama model, named TTS-Llama, that achieves state-of-the-art speech synthesis performance. Building on TTS-Llama, we further propose MoLE-Llama, a text-and-speech multimodal LLM developed through purely late-fusion parameter-efficient fine-tuning (PEFT) and a mixture-of-expert architecture. Extensive empirical results demonstrate MoLE-Llama's competitive performance on both text-only question-answering (QA) and TTS tasks, mitigating catastrophic forgetting issue in either modality. Finally, we further explore MoLE-Llama in text-in-speech-out QA tasks, demonstrating its great potential as a multimodal dialog system capable of speech generation.

Understanding molecules is key to understanding organisms and driving advances in drug discovery, requiring interdisciplinary knowledge across chemistry and biology. Although large molecular language models have achieved notable success in interpreting molecular structures, their instruction datasets are limited to the specific knowledge from task-oriented datasets and do not fully cover the fundamental characteristics of molecules, hindering their abilities as general-purpose molecular assistants. To address this issue, we propose Mol-LLaMA, a large molecular language model that grasps the general knowledge centered on molecules via multi-modal instruction tuning. To this end, we design key data types that encompass the fundamental features of molecules, incorporating essential knowledge from molecular structures. In addition, to improve understanding of molecular features, we introduce a module that integrates complementary information from different molecular encoders, leveraging the distinct advantages of different molecular representations. Our experimental results demonstrate that Mol-LLaMA is capable of comprehending the general features of molecules and generating relevant responses to users' queries with detailed explanations, implying its potential as a general-purpose assistant for molecular analysis.

Generative models have demonstrated substantial promise in Natural Language Processing (NLP) and have found application in designing molecules, as seen in General Pretrained Transformer (GPT) models. In our efforts to develop such a tool for exploring the organic chemical space in search of potentially electro-active compounds, we present "LLamol", a single novel generative transformer model based on the LLama 2 architecture, which was trained on a 13M superset of organic compounds drawn from diverse public sources. To allow for a maximum flexibility in usage and robustness in view of potentially incomplete data, we introduce "Stochastic Context Learning" as a new training procedure. We demonstrate that the resulting model adeptly handles single- and multi-conditional organic molecule generation with up to four conditions, yet more are possible. The model generates valid molecular structures in SMILES notation while flexibly incorporating three numerical and/or one token sequence into the generative process, just as requested. The generated compounds are very satisfactory in all scenarios tested. In detail, we showcase the model's capability to utilize token sequences for conditioning, either individually or in combination with numerical properties, making LLamol a potent tool for de novo molecule design, easily expandable with new properties.

Here we show that a Large Language Model (LLM) can serve as a foundation model for a Chemical Language Model (CLM) which performs at or above the level of CLMs trained solely on chemical SMILES string data. Using supervised fine-tuning (SFT) and direct preference optimization (DPO) on the open-source Llama LLM, we demonstrate that we can train an LLM to respond to prompts such as generating molecules with properties of interest to drug development. This overall framework allows an LLM to not just be a chatbot client for chemistry and materials tasks, but can be adapted to speak more directly as a CLM which can generate molecules with user-specified properties.

Drug discovery is a complex and resource-intensive process, making early prediction of approval outcomes critical for optimizing research investments. While classical machine learning and deep learning methods have shown promise in drug approval prediction, their limited interpretability constraints their impact. Here, we present DrugReasoner, a reasoning-based large language model (LLM) built on the LLaMA architecture and fine-tuned with group relative policy optimization (GRPO) to predict the likelihood of small-molecule approval. DrugReasoner integrates molecular descriptors with comparative reasoning against structurally similar approved and unapproved compounds, generating predictions alongside step-by-step rationales and confidence scores. DrugReasoner achieved robust performance with an AUC of 0.732 and an F1 score of 0.729 on the validation set and 0.725 and 0.718 on the test set, respectively. These results outperformed conventional baselines, including logistic regression, support vector machine, and k-nearest neighbors and had competitive performance relative to XGBoost. On an external independent dataset, DrugReasoner outperformed both baseline and the recently developed ChemAP model, achieving an AUC of 0.728 and an F1-score of 0.774, while maintaining high precision and balanced sensitivity, demonstrating robustness in real-world scenarios. These findings demonstrate that DrugReasoner not only delivers competitive predictive accuracy but also enhances transparency through its reasoning outputs, thereby addressing a key bottleneck in AI-assisted drug discovery. This study highlights the potential of reasoning-augmented LLMs as interpretable and effective tools for pharmaceutical decision-making.