We propose ProtLLM, a versatile cross-modal large language model (LLM) for both protein-centric and protein-language tasks. ProtLLM features a unique dynamic protein mounting mechanism, enabling it to handle complex inputs where the natural language text is interspersed with an arbitrary number of proteins. Besides, we propose the protein-as-word language modeling approach to train ProtLLM. By developing a specialized protein vocabulary, we equip the model with the capability to predict not just natural language but also proteins from a vast pool of candidates. Additionally, we construct a large-scale interleaved protein-text dataset, named InterPT, for pre-training. This dataset comprehensively encompasses both (1) structured data sources like protein annotations and (2) unstructured data sources like biological research papers, thereby endowing ProtLLM with crucial knowledge for understanding proteins. We evaluate ProtLLM on classic supervised protein-centric tasks and explore its novel protein-language applications. Experimental results demonstrate that ProtLLM not only achieves superior performance against protein-specialized baselines on protein-centric tasks but also induces zero-shot and in-context learning capabilities on protein-language tasks.

Scientific Machine Reading Comprehension (SMRC) aims to facilitate the understanding of scientific texts through human-machine interactions. While existing dataset has significantly contributed to this field, it predominantly focus on single-perspective question-answer pairs, thereby overlooking the inherent variation in comprehension levels among different readers. To address this limitation, we introduce a novel multi-perspective scientific machine reading comprehension dataset, SciMRC, which incorporates perspectives from beginners, students, and experts. Our dataset comprises 741 scientific papers and 6,057 question-answer pairs, with 3,306, 1,800, and 951 pairs corresponding to beginners, students, and experts respectively. Extensive experiments conducted on SciMRC using pre-trained models underscore the importance of considering diverse perspectives in SMRC and highlight the challenging nature of our scientific machine comprehension tasks.

Cross-lingual retrieval aims to retrieve relevant text across languages. Current methods typically achieve cross-lingual retrieval by learning language-agnostic text representations in word or sentence level. However, how to learn phrase representations for cross-lingual phrase retrieval is still an open problem. In this paper, we propose , a cross-lingual phrase retriever that extracts phrase representations from unlabeled example sentences. Moreover, we create a large-scale cross-lingual phrase retrieval dataset, which contains 65K bilingual phrase pairs and 4.2M example sentences in 8 English-centric language pairs. Experimental results show that outperforms state-of-the-art baselines which utilize word-level or sentence-level representations. also shows impressive zero-shot transferability that enables the model to perform retrieval in an unseen language pair during training. Our dataset, code, and trained models are publicly available at github.com/cwszz/XPR/.