Related papers: Introduction to the Special Issue: Genome-Wide Ass…

A structural genetic model incorporating a modern understanding of the genome and common practice in genome-wide association studies is derived mathematically. The model shows the Haldane map distance as a direct consequence of the…

Differences between biological networks corresponding to disease conditions can help delineate the underlying disease mechanisms. Existing methods for differential network analysis do not account for dependence of networks on covariates. As…

The linking genotype to phenotype is the fundamental aim of modern genetics. We focus on study of links between gene expression data and phenotype data through integrative analysis. We propose three approaches. 1) The inherent complexity of…

Introduction to deep neural networks and their history.

MA plots are used to analyze the genome-wide differences in gene expression between two distinct biological conditions. An MA plot is usually rendered as a static scatter plot. Our interview with 3 experts in genomics showed that we could…

Genome-wide association studies have become increasingly common due to advances in technology and have permitted the identification of differences in single nucleotide polymorphism (SNP) alleles that are associated with diseases. However,…

Essential introduction to glial cells with emphasis on astrocytes, microglia and their interplay in reactive astrogliosis.

We lay down the foundations for a systematic study of differentiable and algebraic supervarieties, with a special attention to supergroups.

Comment on ``Gibbs Sampling, Exponential Families, and Orthogonal Polynomials'' [arXiv:0808.3852]

The article presents the theoretical foundations of the algorithm for calculating the number of different genomes in the medium under study and of two algorithms for determining the presence of a particular (known) genome in this medium.…

Currently, third-generation sequencing techniques, which allow to obtain much longer DNA reads compared to the next-generation sequencing technologies, are becoming more and more popular. There are many possibilities to combine data from…

Special cases of Weber-Schafheitlin type integrals are evaluated analytically.

We consider the problem of statistical inference on unknown quantities structured as a multiway table. We show that such multiway tables are naturally formed by arranging regression coefficients in complex systems of linear models for…

Special functions and their applications in quantum mechanics and electromagnetism: Course notes.

Rapid advancements in technology have led to an increased use of artificial intelligence (AI) technologies in medicine and bioinformatics research. In anticipation of this, the National Institutes of Health (NIH) assembled the Bridge to…

In the genomic era, the identification of gene signatures associated with disease is of significant interest. Such signatures are often used to predict clinical outcomes in new patients and aid clinical decision-making. However, recent…

We study the challenges of applying deep learning to gene expression data. We find experimentally that there exists non-linear signal in the data, however is it not discovered automatically given the noise and low numbers of samples used in…

We present a generalization of the Newton-Girard identities, along with some applications. As an addendum, we collect many evaluations of symmetric polynomials to which these identities apply.

Accurate variant descriptions are of paramount importance in the field of genomics. The domain is confronted with increasingly complex variants, e.g., combinations of multiple indels, making it challenging to generate proper variant…

In this paper, we investigate some properties of the associated sequence of Daehee and Changhee polynomials. Finally, we give some interesting identities of associated sequence involving some special polynomials.