相关论文: Filtering ASVs/OTUs via Mutual Information-Based M…
We introduce a community detection algorithm (Fluid Communities) based on the idea of fluids interacting in an environment, expanding and contracting as a result of that interaction. Fluid Communities is based on the propagation…
Besides mimicking bio-chemical and multi-scale communication mechanisms, molecular communication forms a theoretical framework for virus infection processes. Towards this goal, aerosol and droplet transmission has recently been modeled as a…
Background: Coevolution within a protein family is often predicted using statistics that measure the degree of covariation between positions in the protein sequence. Mutual Information is a measure of dependence between two random variables…
Chemicals released in the air can be extremely dangerous for human beings and the environment. Hyperspectral images can be used to identify chemical plumes, however the task can be extremely challenging. Assuming we know a priori that some…
In this paper, we adopt the maximizing mutual information (MI) approach to tackle the problem of unsupervised learning of binary hash codes for efficient cross-modal retrieval. We proposed a novel method, dubbed Cross-Modal Info-Max Hashing…
Metagenomics sequencing is routinely applied to quantify bacterial abundances in microbiome studies, where the bacterial composition is estimated based on the sequencing read counts. Due to limited sequencing depth and DNA dropouts, many…
Machine learning (ML) is poised to drive innovations in clinical microbiomics, such as in disease diagnostics and prognostics. However, the successful implementation of ML in these domains necessitates the development of reproducible,…
The recent progress in self-supervised learning has successfully combined Masked Image Modeling (MIM) with Siamese Networks, harnessing the strengths of both methodologies. Nonetheless, certain challenges persist when integrating…
Population analysis is persistently challenging but important, leading to the determination of diversity and function prediction of microbial community members. Here we detail our bioinformatics methods for analyzing population distribution…
The Internet of Bio-nano Things is a significant development for next generation communication technologies. Because conventional wireless communication technologies face challenges in realizing new applications (e.g., in-body area networks…
Missing values in electronic health record (EHR) data pose a significant challenge for epidemiologic research. Traditional methods for handling missing data, like mean imputation, may introduce bias. Multiple imputation (MI) offers a…
Air pollution remains one of the most pressing environmental challenges of the modern era, significantly impacting human health, ecosystems, and climate. While traditional air quality monitoring systems provide critical data, their high…
Collaborative filtering is a rapidly advancing research area. Every year several new techniques are proposed and yet it is not clear which of the techniques work best and under what conditions. In this paper we conduct a study comparing…
High dimensional and heterogeneous count data are collected in various applied fields. In this paper, we look closely at high-resolution sequencing data on the microbiome, which have enabled researchers to study the genomes of entire…
The advances of next-generation sequencing technology have accelerated study of the microbiome and stimulated the high throughput profiling of metagenomes. The large volume of sequenced data has encouraged the rise of various studies for…
A flow approach to community detection in complex network and multilayer network systems is proposed. Two methods have been developed to search for communities in a network system (NS). The first of them is based on the calculation of flow…
Many methods have been proposed to detect communities, not only in plain, but also in attributed, directed or even dynamic complex networks. In its simplest form, a community structure takes the form of a partition of the node set. From the…
Marine litter poses significant threats to marine and coastal environments, with its impacts ever-growing. Remote sensing provides an advantageous supplement to traditional mitigation techniques, such as local cleaning operations and trawl…
In groundwater contaminant remediation and risk assessment, it is important to identify parameters of the contaminant source and hydraulic conductivity field by solving an inverse problem. However, if the dimensionality of the inverse…
This work considers clustering nodes of a largely incomplete graph. Under the problem setting, only a small amount of queries about the edges can be made, but the entire graph is not observable. This problem finds applications in…