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The integration of bioinformatics predictions and experimental validation plays a pivotal role in advancing biological research, from understanding molecular mechanisms to developing therapeutic strategies. Bioinformatics tools and methods…
Generative artificial intelligence (GenAI) has become a transformative approach in bioinformatics that often enables advancements in genomics, proteomics, transcriptomics, structural biology, and drug discovery. To systematically identify…
This paper will argue that one of the biggest challenges for livestock genomics is to make whole-genome sequencing and functional genomics applicable to breeding practice. It discusses potential explanations for why it is so difficult to…
We present the Thought Graph as a novel framework to support complex reasoning and use gene set analysis as an example to uncover semantic relationships between biological processes. Our framework stands out for its ability to provide a…
Evaluating the quality of reasoning traces from large language models remains understudied, labor-intensive, and unreliable: current practice relies on expert rubrics, manual annotation, and slow pairwise judgments. Automated efforts are…
Biomedical research has revealed the crucial role of miRNAs in the progression of many diseases, and computational prediction methods are increasingly proposed for assisting biological experiments to verify miRNA-disease associations…
Genetic Regulatory Networks (GRNs) plays a vital role in the understanding of complex biological processes. Modeling GRNs is significantly important in order to reveal fundamental cellular processes, examine gene functions and understanding…
This paper explores the potential of AI-powered tools to reshape data analysis, focusing on design considerations and challenges. We explore how the emergence of large language and multimodal models offers new opportunities to enhance…
Background: Identification of the interactions and regulatory relations between biomolecules play pivotal roles in understanding complex biological systems and the mechanisms underlying diverse biological functions. However, the collection…
Large Language Models (LLMs) have succeeded remarkably in various natural language processing (NLP) tasks, yet their reasoning capabilities remain a fundamental challenge. While LLMs exhibit impressive fluency and factual recall, their…
Finding Boolean functions suitable for cryptographic primitives is a complex combinatorial optimization problem, since they must satisfy several properties to resist cryptanalytic attacks, and the space is very large, which grows super…
Since the launch of various generative AI tools, scientists have been striving to evaluate their capabilities and contents, in the hope of establishing trust in their generative abilities. Regulations and guidelines are emerging to verify…
There has been enormous interest in generative AI since ChatGPT was launched in 2022. However, there are concerns about the accuracy and consistency of the outputs of generative AI. We have carried out an exploratory study on the…
Molecular and morphological characters, as important parts of biological taxonomy, are contradictory but need to be integrated. Organism's image recognition and bioinformatics are emerging and hot problems nowadays but with a gap between…
Diagnostic tests that can detect pre-clinical or sub-clinical infection, are one of the most powerful tools in our armoury of weapons to control infectious diseases. Considerable effort has been paid to improving diagnostic testing for…
In the rapidly evolving landscape of artificial intelligence (AI), generative large language models (LLMs) stand at the forefront, revolutionizing how we interact with our data. However, the computational intensity and memory consumption of…
Generative artificial intelligence (AI) is conquering our lives at lightning speed. Large language models such as ChatGPT answer our questions or write texts for us, large computer vision models such as GAIA-1 generate videos on the basis…
In recent years, Natural Language Processing (NLP) has played a significant role in various Artificial Intelligence (AI) applications such as chatbots, text generation, and language translation. The emergence of large language models (LLMs)…
Arabidopsis thaliana is a plant species widely utilized by scientists to estimate the impact of genetic differences in root morphological features. For this purpose, images of this plant after genetic modifications are taken to study…
Problem-solving has been a fundamental driver of human progress in numerous domains. With advancements in artificial intelligence, Large Language Models (LLMs) have emerged as powerful tools capable of tackling complex problems across…