相关论文: Filtering Microarray Correlations by Statistical L…
Protein is linked to almost every life process. Therefore, analyzing the biological structure and property of protein sequences is critical to the exploration of life, as well as disease detection and drug discovery. Traditional protein…
Genetic variants identified to date by genome-wide association studies only explain a small fraction of total heritability. Gene-by-gene interaction is one important potential source of unexplained heritability. In the first part of this…
Efficiently identifying keyphrases that represent a given document is a challenging task. In the last years, plethora of keyword detection approaches were proposed. These approaches can be based on statistical (frequency-based) properties…
With the development of next generation sequencing techniques, it is fast and cheap to determine protein sequences but relatively slow and expensive to extract useful information from protein sequences because of limitations of traditional…
In a traditional Gaussian graphical model, data homogeneity is routinely assumed with no extra variables affecting the conditional independence. In modern genomic datasets, there is an abundance of auxiliary information, which often gets…
Online social media such as the micro-blogging site Twitter has become a rich source of real-time data on online human behaviors. Here we analyze the occurrence and co-occurrence frequency of keywords in user posts on Twitter. From the…
The protein-protein interaction (PPI) network provides an overview of the complex biological reactions vital to an organism's metabolism and survival. Even though in the past PPI network were compared across organisms in detail, there has…
Numerous cellular functions rely on protein$\unicode{x2013}$protein interactions. Efforts to comprehensively characterize them remain challenged however by the diversity of molecular recognition mechanisms employed within the proteome. Deep…
Query expansion is a well known method to improve the performance of information retrieval systems. In this work we have tested different approaches to extract the candidate query terms from the top ranked documents returned by the…
Author co-citation studies employ factor analysis to reduce high-dimensional co-citation matrices to low-dimensional and possibly interpretable factors, but these studies do not use any information from the text bodies of publications. We…
A daunting challenge faced by modern biological sciences is finding an efficient and computationally feasible approach to deal with the curse of high dimensionality. The problem becomes even more severe when the research focus is on…
Identifying protein-protein interactions is crucial for a systems-level understanding of the cell. Recently, algorithms based on inverse statistical physics, e.g. Direct Coupling Analysis (DCA), have allowed to use evolutionarily related…
With the recent availability of tissue-specific gene expression data, e.g., provided by the GTEx Consortium, there is interest in comparing gene co-expression patterns across tissues. One promising approach to this problem is to use a…
Keyphrases which are useful in several NLP and IR applications are either extracted from text or predicted by generative models. Contrarily to keyphrase extraction approaches, keyphrase generation models can predict keyphrases that do not…
Bivariate count data arise in several different disciplines (epidemiology, marketing, sports statistics, etc., to name but a few) and the bivariate Poisson distribution which is a generalization of the Poisson distribution plays an…
Nonlinear interaction of membrane proteins with cytoskeleton and membrane leads to non-Gaussian structure of their displacement probability distribution. We propose a novel statistical analysis technique for learning the characteristics of…
The high-throughput data generated by microarray experiments provides complete set of genes being expressed in a given cell or in an organism under particular conditions. The analysis of these enormous data has opened a new dimension for…
Discovering interaction effects on a response of interest is a fundamental problem faced in biology, medicine, economics, and many other scientific disciplines. In theory, Bayesian methods for discovering pairwise interactions enjoy many…
Demographic and behavioral characteristics of journal authors are important indicators of homophily in co-authorship networks. In the presence of correlations between adjacent nodes (assortative mixing), combining the estimation of the…
In recent years, protein-text models have gained significant attention for their potential in protein generation and understanding. Current approaches focus on integrating protein-related knowledge into large language models through…