Goto

Collaborating Authors

 genetic data


Multi-omic Prognosis of Alzheimer's Disease with Asymmetric Cross-Modal Cross-Attention Network

Ming, Yang, Zhong, Jiang Shi, Juan, Zhou Su

arXiv.org Artificial Intelligence

Alzheimer's Disease (AD) is an irreversible neurodegenerative disease characterized by progressive cognitive decline as its main symptom. In the research field of deep learning-assisted diagnosis of AD, traditional convolutional neural networks and simple feature concatenation methods fail to effectively utilize the complementary information between multimodal data, and the simple feature concatenation approach is prone to cause the loss of key information during the process of modal fusion. In recent years, the development of deep learning technology has brought new possibilities for solving the problem of how to effectively fuse multimodal features. This paper proposes a novel deep learning algorithm framework to assist medical professionals in AD diagnosis. By fusing medical multi-view information such as brain fluorodeoxyglucose positron emission tomography (PET), magnetic resonance imaging (MRI), genetic data, and clinical data, it can accurately detect the presence of AD, Mild Cognitive Impairment (MCI), and Cognitively Normal (CN). The innovation of the algorithm lies in the use of an asymmetric cross-modal cross-attention mechanism, which can effectively capture the key information features of the interactions between different data modal features. This paper compares the asymmetric cross-modal cross-attention mechanism with the traditional algorithm frameworks of unimodal and multimodal deep learning models for AD diagnosis, and evaluates the importance of the asymmetric cross-modal cross-attention mechanism. The algorithm model achieves an accuracy of 94.88% on the test set.


Biotech firm aims to create 'ChatGPT of biology' – will it work?

New Scientist

A British biotech firm called Basecamp Research has spent the past few years collecting troves of genetic data from microbes living in extreme environments around the world, identifying more than a million species and nearly 10 billion genes new to science. It claims that this massive database of the planet's biodiversity will help train a "ChatGPT of biology" that will answer questions about life on Earth – but there's no guarantee this will work. A hydrogen fuel revolution is coming – here's why we might not want it Jörg Overmann at the Leibniz Institute DSMZ in Germany, which houses one of the world's most diverse collections of microbial cultures, says increasing known genetic sequences is valuable, but may not result in useful findings for things like drug discovery or chemistry without more information about the organisms from which they were collected. "I'm not convinced that in the end the understanding of really novel functions will be accelerated by this brute-force increase in the sequence space," he says. Recent years have seen researchers develop a number of machine learning models trained to identify patterns and predict relationships amid vast amounts of biological data.


The Download: generative AI therapy, and the future of 23andMe's genetic data

MIT Technology Review

June 2022 Across the world, video cameras have become an accepted feature of urban life. Many cities in China now have dense networks of them, and London and New Delhi aren't far behind. Now France is playing catch-up. Concerns have been raised throughout the country. But the surveillance rollout has met special resistance in Marseille, France's second-biggest city. It's unsurprising, perhaps, that activists are fighting back against the cameras, highlighting the surveillance system's overreach and underperformance.


Why 23andMe's Genetic Data Could Be a 'Gold Mine' for AI Companies

TIME - Tech

But any AI-related company attempting to acquire 23andMe would run significant reputational risks. Many people are horrified by the thought that they surrendered their genetic data to trace their ancestry, only for it to now be potentially used in ways they never consented to. "Anybody touching this data is running a risk," Kumar, who is the director of Fox's Center for Business Analytics and Disruptive Technologies, says. "But at the same time, not touching it, they might be losing on something big as well." What Does That Mean For Your Account?


Exploring Multi-Modality Dynamics: Insights and Challenges in Multimodal Fusion for Biomedical Tasks

Wenderoth, Laura

arXiv.org Artificial Intelligence

This paper investigates the MM dynamics approach proposed by Han et al. (2022) for multi-modal fusion in biomedical classification tasks. The MM dynamics algorithm integrates feature-level and modality-level informativeness to dynamically fuse modalities for improved classification performance. However, our analysis reveals several limitations and challenges in replicating and extending the results of MM dynamics. We found that feature informativeness improves performance and explainability, while modality informativeness does not provide significant advantages and can lead to performance degradation. Based on these results, we have extended feature informativeness to image data, resulting in the development of Image MM dynamics. Although this approach showed promising qualitative results, it did not outperform baseline methods quantitatively.


Multi-modal Medical Image Fusion For Non-Small Cell Lung Cancer Classification

Hassan, Salma, Hammadi, Hamad Al, Mohammed, Ibrahim, Khan, Muhammad Haris

arXiv.org Artificial Intelligence

The early detection and nuanced subtype classification of non-small cell lung cancer (NSCLC), a predominant cause of cancer mortality worldwide, is a critical and complex issue. In this paper, we introduce an innovative integration of multi-modal data, synthesizing fused medical imaging (CT and PET scans) with clinical health records and genomic data. This unique fusion methodology leverages advanced machine learning models, notably MedClip and BEiT, for sophisticated image feature extraction, setting a new standard in computational oncology. Our research surpasses existing approaches, as evidenced by a substantial enhancement in NSCLC detection and classification precision. The results showcase notable improvements across key performance metrics, including accuracy, precision, recall, and F1-score. Specifically, our leading multi-modal classifier model records an impressive accuracy of 94.04%. We believe that our approach has the potential to transform NSCLC diagnostics, facilitating earlier detection and more effective treatment planning and, ultimately, leading to superior patient outcomes in lung cancer care.


Nested Inheritance Dynamics

Moraffah, Bahman

arXiv.org Artificial Intelligence

The idea of the inheritance of biological processes, such as the developmental process or the life cycle of an organism, has been discussed in the biology literature, but formal mathematical descriptions and plausible data analysis frameworks are lacking. We introduce an extension of the nested Dirichlet Process (nDP) to a multiscale model to aid in understanding the mechanisms by which biological processes are inherited, remain stable, and are modified across generations. To address these issues, we introduce Nested Inheritance Dynamics Algorithm (NIDA). At its primary level, NIDA encompasses all processes unfolding within an individual organism's lifespan. The secondary level delineates the dynamics through which these processes evolve or remain stable over time. This framework allows for the specification of a physical system model at either scale, thus promoting seamless integration with established models of development and heredity.


Scalable imputation of genetic data with a discrete fragmentation coagulation process

Neural Information Processing Systems

We present a Bayesian nonparametric model for genetic sequence data in which a set of genetic sequences is modelled using a Markov model of partitions. The partitions at consecutive locations in the genome are related by the splitting and merging of their clusters. Our model can be thought of as a discrete analogue of the continuous fragmentation-coagulation process [Teh et al 2011], preserving the important properties of projectivity, exchangeability and reversibility, while being more scalable. We apply this model to the problem of genotype imputation, showing improved computational efficiency while maintaining accuracies comparable to other state-of-the-art genotype imputation methods.


MOAB: Multi-Modal Outer Arithmetic Block For Fusion Of Histopathological Images And Genetic Data For Brain Tumor Grading

Alwazzan, Omnia, Khan, Abbas, Patras, Ioannis, Slabaugh, Gregory

arXiv.org Artificial Intelligence

Brain tumors are an abnormal growth of cells in the brain. They can be classified into distinct grades based on their growth. Often grading is performed based on a histological image and is one of the most significant predictors of a patients prognosis, the higher the grade, the more aggressive the tumor. Correct diagnosis of a tumor grade remains challenging. Though histopathological grading has been shown to be prognostic, results are subject to interobserver variability, even among experienced pathologists. Recently, the World Health Organization reported that advances in molecular genetics have led to improvements in tumor classification. This paper seeks to integrate histological images and genetic data for improved computer-aided diagnosis. We propose a novel Multi-modal Outer Arithmetic Block (MOAB) based on arithmetic operations to combine latent representations of the different modalities for predicting the tumor grade (Grade \rom{2}, \rom{3} and \rom{4}). Extensive experiments evaluate the effectiveness of our approach. By applying MOAB to The Cancer Genome Atlas (TCGA) glioma dataset, we show that it can improve separation between similar classes (Grade \rom{2} and \rom{3}) and outperform prior state-of-the-art grade classification techniques.


Congress weighs ban on government contracts for 'adversarial biotech companies' like China's BGI

FOX News

Defense companies exploring artificial intelligence will help the U.S. military "keep up" with rivals like China, a former fighter pilot told Fox News. The Senate version of the National Defense Authorization Act could include a House-authored provision that prohibits the United States government and its contractors from buying equipment from "adversarial biotech companies" that work to "exploit" Americans' genetic information for "malign purposes," Fox News Digital has learned. Both the Senate and the House of Representatives are currently conferencing and negotiating on final NDAA text that can be passed by both chambers. The provision, which was passed in the original House bill, was introduced by House China Select Committee Chairman Mike Gallagher, R-Wis. The provision prohibits the purchase of biotechnology equipment or services from all United States adversaries, including North Korea, Russia, Iran and China.