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In this paper, we propose a new method to identify biochemical reaction networks (i.e. both reactions and kinetic parameters) from heterogeneous datasets. Such datasets can contain (a) data from several replicates of an experiment performed…

Systems and Control · Computer Science 2015-09-21 Wei Pan , Ye Yuan , Lennart Ljung , Jorge Goncalves , Guy-Bart Stan

The task of searching through patent documents is crucial for chemical patent recommendation and retrieval. This can be enhanced by creating a patent knowledge base (ChemPatKB) to aid in prior art searches and to provide a platform for…

Information Retrieval · Computer Science 2024-07-24 Aishwarya Jadhav , Ritam Dutt

The Internet has become a very powerful platform where diverse medical information are expressed daily. Recently, a huge growth is seen in searches like symptoms, diseases, medicines, and many other health related queries around the globe.…

Multiagent Systems · Computer Science 2021-01-26 Nilanjan Sinhababu , Rahul Saxena , Monalisa Sarma , Debasis Samanta

This paper presents an integrated multi-agents architecture for indexing and retrieving video information.The focus of our work is to elaborate an extensible approach that gathers a priori almost of the mandatory tools which palliate to the…

Information Retrieval · Computer Science 2014-08-01 Yasser El Madani El Alami , El Habib Nfaoui , Omar El Beqqali

This paper proposes a cross-modal retrieval system that leverages on image and text encoding. Most multimodal architectures employ separate networks for each modality to capture the semantic relationship between them. However, in our work…

Computer Vision and Pattern Recognition · Computer Science 2018-07-20 Shah Nawaz , Muhammad Kamran Janjua , Alessandro Calefati , Ignazio Gallo

We present a system that allows life-science researchers to search a linguistically annotated corpus of scientific texts using patterns over dependency graphs, as well as using patterns over token sequences and a powerful variant of boolean…

Computation and Language · Computer Science 2020-06-09 Hillel Taub-Tabib , Micah Shlain , Shoval Sadde , Dan Lahav , Matan Eyal , Yaara Cohen , Yoav Goldberg

With the exponential surge in diverse multi-modal data, traditional uni-modal retrieval methods struggle to meet the needs of users seeking access to data across various modalities. To address this, cross-modal retrieval has emerged,…

Information Retrieval · Computer Science 2024-10-01 Tianshi Wang , Fengling Li , Lei Zhu , Jingjing Li , Zheng Zhang , Heng Tao Shen

Multimodal large language models (MLLMs) have made impressive progress in many applications in recent years. However, chemical MLLMs that can handle cross-modal understanding and generation remain underexplored. To fill this gap, we propose…

Machine Learning · Computer Science 2025-08-05 Qian Tan , Dongzhan Zhou , Peng Xia , Wanhao Liu , Wanli Ouyang , Lei Bai , Yuqiang Li , Tianfan Fu

Document Question Answering (QA) presents a challenge in understanding visually-rich documents (VRD), particularly those dominated by lengthy textual content like research journal articles. Existing studies primarily focus on real-world…

Computer Vision and Pattern Recognition · Computer Science 2024-04-22 Yihao Ding , Kaixuan Ren , Jiabin Huang , Siwen Luo , Soyeon Caren Han

In the modern drug discovery process, medicinal chemists deal with the complexity of analysis of large ensembles of candidate molecules. Computational tools, such as dimensionality reduction (DR) and classification, are commonly used to…

In this paper, we present ChemRecon, a meta-database and Python interface for integrating and exploring biochemical data across multiple heterogeneous resources by consolidating compounds, reactions, enzymes, molecular structures, and…

Quantitative Methods · Quantitative Biology 2026-02-16 Casper Asbjørn Eriksen , Jakob Lykke Andersen , Rolf Fagerberg , Daniel Merkle

Multimodal relation extraction (MRE) is the task of identifying the semantic relationships between two entities based on the context of the sentence image pair. Existing retrieval-augmented approaches mainly focused on modeling the…

Computation and Language · Computer Science 2023-05-26 Xuming Hu , Zhijiang Guo , Zhiyang Teng , Irwin King , Philip S. Yu

In this paper we present a novel interactive multimodal learning system, which facilitates search and exploration in large networks of social multimedia users. It allows the analyst to identify and select users of interest, and to find…

Information Retrieval · Computer Science 2019-05-08 Iva Gornishka , Stevan Rudinac , Marcel Worring

We propose a physically-realisable biochemical device that is coupled to a biochemical reservoir of mutual information, fuel molecules and a chemical bath. Mutual information allows work to be done on the bath even when the fuel molecules…

Statistical Mechanics · Physics 2017-01-18 Thomas McGrath , Nick S. Jones , Pieter Rein ten Wolde , Thomas E. Ouldridge

Large language models record impressive performance on many natural language processing tasks. However, their knowledge capacity is limited to the pretraining corpus. Retrieval augmentation offers an effective solution by retrieving context…

Computation and Language · Computer Science 2023-11-22 Sai Munikoti , Anurag Acharya , Sridevi Wagle , Sameera Horawalavithana

The versatility of multimodal deep learning holds tremendous promise for advancing scientific research and practical applications. As this field continues to evolve, the collective power of cross-modal analysis promises to drive…

Machine Learning · Computer Science 2025-05-15 Yifei Wang , Yunrui Li , Lin Liu , Pengyu Hong , Hao Xu

Multimodal document retrieval aims to identify and retrieve various forms of multimodal content, such as figures, tables, charts, and layout information from extensive documents. Despite its increasing popularity, there is a notable lack of…

Information Retrieval · Computer Science 2025-11-10 Kuicai Dong , Yujing Chang , Xin Deik Goh , Dexun Li , Ruiming Tang , Yong Liu

The rapid growth of scientific literature has made it increasingly difficult for researchers to efficiently discover, evaluate, and synthesize relevant work. Recent advances in multi-agent large language models (LLMs) have demonstrated…

Computation and Language · Computer Science 2026-04-08 Komal Kumar , Aman Chadha , Salman Khan , Fahad Shahbaz Khan , Hisham Cholakkal

Multimodal document retrieval aims to retrieve query-relevant components from documents composed of textual, tabular, and visual elements. An effective multimodal retriever needs to handle two main challenges: (1) mitigate the effect of…

Information Retrieval · Computer Science 2026-02-05 Joohyung Yun , Doyup Lee , Wook-Shin Han

The World Wide Web and social media platforms have become popular sources for news and information. Typically, multimodal information, e.g., image and text is used to convey information more effectively and to attract attention. While in…

Information Retrieval · Computer Science 2021-04-29 Matthias Springstein , Eric Müller-Budack , Ralph Ewerth