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In an effort to catalog insect biodiversity, we propose a new large dataset of hand-labelled insect images, the BIOSCAN-Insect Dataset. Each record is taxonomically classified by an expert, and also has associated genetic information…
The phenotypic consequences of individual mutations are modulated by the wild type genetic background in which they occur.Although such background dependence is widely observed, we do not know whether general patterns across species and…
The parton distribution function of the pion in the valence region is extracted in a next-to-leading order analysis from Fermilab E-615 pionic Drell-Yan data. The effects of the parameterization of the pion's valence distributions are…
Aims. We investigate the contribution of shot-noise and sample variance to the uncertainty of cosmological parameter constraints inferred from cluster number counts in the context of the Euclid survey. Methods. By analysing 1000 Euclid-like…
Cabibbo-allowed nonleptonic weak decays of charmed baryons $\lamc,~\xin,~\xip$ and $\Omega_c^0$ into an octet baryon and a pseudoscalar meson are analyzed. The nonfactorizable contributions are evaluated under pole approximation, and it…
In this paper we report results for recognizing colorectal NBI endoscopic images by using features extracted from convolutional neural network (CNN). In this comparative study, we extract features from different layers from different CNN…
The study of common heritability, or co-heritability, among multiple traits has been widely established in quantitative and molecular genetics. However, in bacteria, genome-based estimation of heritability has only been considered very…
Probability density function estimation with weighted samples is the main foundation of all adaptive importance sampling algorithms. Classically, a target distribution is approximated either by a non-parametric model or within a parametric…
Objective: A novel structure based on channel-wise attention mechanism is presented in this paper. Embedding with the proposed structure, an efficient classification model that accepts multi-lead electrocardiogram (ECG) as input is…
Recent studies reveal even the smallest genomes such as viruses evolve through complex and stochastic processes, and the assumption of independent alleles is not valid in most applications. Advances in sequencing technologies produce…
A new version of DNA walks, where nucleotides are regarded unequal in their contribution to a walk is introduced, which allows us to study thoroughly the "fine structure" of nucleotide sequences. The approach is based on the assumption that…
We introduce an extended version of oxDNA, a coarse-grained model of DNA designed to capture the thermodynamic, structural and mechanical properties of single- and double-stranded DNA. By including explicit major and minor grooves, and by…
Automated international classification of diseases (ICD) coding aims to assign multiple disease codes to clinical documents and plays a critical role in healthcare informatics. However, its performance is hindered by the extreme long-tail…
The problem of selecting the most useful features from a great many (eg, thousands) of candidates arises in many areas of modern sciences. An interesting problem from genomic research is that, from thousands of genes that are active…
A quaternionic representation of the genetic code, previously reported by the authors, is updated in order to incorporate chirality of nucleotide bases and amino acids. The original representation assigns to each nucleotide base a prime…
To characterize natural selection, various analytical methods for detecting candidate genomic regions have been developed. We propose to perform genome-wide scans of natural selection using principal component analysis. We show that the…
One of the important questions in biological evolution is to know if certain changes along protein coding genes have contributed to the adaptation of species. This problem is known to be biologically complex and computationally very…
This paper builds upon the fundamental work of Niwa et al. [34], which provides the unique possibility to analyze the relative aggregation/folding propensity of the elements of the entire Escherichia coli (E. coli) proteome in a cell-free…
In previous papers we have described with strong experimental support, the organising role that CoHSI (Conservation of Hartley-Shannon Information) plays in determining important global properties of all known proteins, from defining the…
Metagenomic profiling is challenging in part because of the highly uneven sampling of the tree of life by genome sequencing projects and the limitations imposed by performing phylogenetic inference at fixed taxonomic ranks. We present the…