20 accepted papers
The work presents an approach for addressing the challenge of robustness in Large Language Models (LLMs) to alterations and potential errors caused by semantically similar but textually different prompts. Recent works have shown that these kinds of prompt variations can significantly impact the perf…
Recent LLMs like DeepSeek-R1 have demonstrated state-of-the-art performance by integrating deep thinking and complex reasoning during generation. However, the internal mechanisms behind these reasoning processes remain unexplored. We observe reasoning LLMs consistently use vocabulary associated with
Machine Unlearning (MU) is critical for removing private or hazardous information from deep learning models. While MU has advanced significantly in unimodal (text or vision) settings, multimodal unlearning (MMU) remains underexplored due to the lack of open benchmarks for evaluating cross-modal data…
Text-to-SQL enables users to interact with databases through natural language, simplifying the retrieval and synthesis of information. Despite the success of large language models (LLMs) in converting natural language questions into SQL queries, their broader adoption is limited by two main challeng…
This study investigates the feasibility of automating clinical coding in Russian, a language with limited biomedical resources. We present a new dataset for ICD coding, which includes diagnosis fields from electronic health records (EHRs) annotated with over 10,000 entities and more than 1,500 uniqu
Existing approaches to multilingual text detoxification are hampered by the scarcity of parallel multilingual datasets. In this work, we introduce a pipeline for the generation of multilingual parallel detoxification data. We also introduce SynthDetoxM, a manually collected and synthetically generat…
This paper investigates compositionality in chemical language models (ChemLLMs). We introduce STEPS, a benchmark with compositional questions that reflect intricate chemical structures and reactions, to evaluate models’ understanding of chemical language. Our approach focuses on identifying and anal
Large Language Models (LLMs) are highly sensitive to subtle, non-semantic variations in prompt phrasing and formatting. In this work, we present the first systematic evaluation of 4 methods for improving prompt robustness within a unified experimental framework. We benchmark these techniques on 8 mo
Recent advancements have integrated Language Models (LMs) into a drug discovery pipeline. However, existing models mostly work with SMILES and SELFIES chemical string representations, which lack spatial features vital for drug discovery. Additionally, attempts to translate chemical 3D structures int…
Methods of computational quantum chemistry provide accurate approximations of molecular properties crucial for computer-aided drug discovery and other areas of chemical science. However, high computational complexity limits the scalability of their applications. Neural network potentials (NNPs) are…
We present a new manually annotated dataset of PubMed abstracts for concept normalization in Russian. It contains over 23,641 entity mentions in 756 documents linked to 4,544 unique concepts from the UMLS ontology. Compared to existing corpora, we explore two novel annotation characteristics: the ne…
Modern biomedical concept representations are mostly trained on synonymous concept names from a biomedical knowledge base, ignoring the inter-concept interactions and a concept’s local neighborhood in a knowledge base graph. In this paper, we introduce Biomedical Entity Representation with a Graph-A…
Molecular conformation optimization is crucial to computer-aided drug discovery and materials design. Traditional energy minimization techniques rely on iterative optimization methods that use molecular forces calculated by a physical simulator (oracle) as anti-gradients. However, this is a computat…
The recent integration of chemistry with natural language processing (NLP) has advanced drug discovery. Molecule representation in language models (LMs) is crucial in enhancing chemical understanding. We propose Augmented Molecular Retrieval (AMORE), a flexible zero-shot framework for assessment of…
Biomedical information retrieval has often been studied as a task of detecting whether a system correctly detects entity spans and links these entities to concepts from a given terminology. Most academic research has focused on evaluation of named entity recognition (NER) and entity linking (EL) mod…
State of the art neural methods for open information extraction (OpenIE) usually extract triplets (or tuples) iteratively in an autoregressive or predicate-based manner in order not to produce duplicates. In this work, we propose a different approach to the problem that can be equally or more succes…
Semantic parsing is an important task that allows to democratize human-computer interaction. One of the most popular text-to-SQL datasets with complex and diverse natural language (NL) questions and SQL queries is Spider. We construct and complement a Spider dataset for Russian, thus creating the fi…
We present RuCCoN, a new dataset for clinical concept normalization in Russian manually annotated by medical professionals. It contains over 16,028 entity mentions manually linked to over 2,409 unique concepts from the Russian language part of the UMLS ontology. We provide train/test splits for diff…
Understanding image advertisements is a challenging task, often requiring non-literal interpretation. We argue that standard image-based predictions are insufficient for symbolism prediction. Following the intuition that texts and images are complementary in advertising, we introduce a multimodal en…
Linking of biomedical entity mentions to various terminologies of chemicals, diseases, genes, adverse drug reactions is a challenging task, often requiring non-syntactic interpretation. A large number of biomedical corpora and state-of-the-art models have been introduced in the past five years. Howe…