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Automating the digitization of Piping and Instrumentation Diagrams (P&IDs) into structured process graphs would unlock significant value in plant operations, yet progress is bottlenecked by a fundamental data problem: engineering drawings…
In this investigation, five separate experiments were carried out. The first experiments were examined the molecular characteristics of 59 barley accessions collected from different regions in Iraq using three different molecular markers…
We consider the problem of clustering nested or hierarchical data, where observations are grouped and there are both group-level and observation-level variables. In our motivating OneK1K dataset, observations consist of single-cell…
We propose a novel method to cluster gene networks. Based on a dissimilarity built using correlation structures, we consider networks that connect all the genes based on the strength of their dissimilarity. The large number of genes require…
We present the results of Galaxy Nurseries project, which was designed to enable crowdsourced analysis of slitless spectroscopic data by volunteer citizen scientists using the Zooniverse online interface. The dataset was obtained by the…
Plant phenotyping is typically a time-consuming and expensive endeavor, requiring large groups of researchers to meticulously measure biologically relevant plant traits, and is the main bottleneck in understanding plant adaptation and the…
Developing machine learning protocols for molecular simulations requires comprehensive and efficient datasets. Here we introduce the QMe14S dataset, comprising 186,102 small organic molecules featuring 14 elements (H, B, C, N, O, F, Al, Si,…
A convolutional neural network (CNN) is a deep learning algorithm that has been specifically designed for computer vision applications. The CNNs proved successful in handling the increasing amount of data in many computer vision problems,…
d-Hitting Set is the NP-hard problem of selecting at most k vertices of a hypergraph so that each hyperedge, all of which have cardinality at most d, contains at least one selected vertex. The applications of d-Hitting Set are, for example,…
The Allen Atlas of the adult mouse brain is used to estimate the region-specificity of 64 cell types whose transcriptional profile in the mouse brain has been measured in microarray experiments. We systematically analyze the preliminary…
A typical way in which network data is recorded is to measure all the interactions among a specified set of core nodes; this produces a graph containing this core together with a potentially larger set of fringe nodes that have links to the…
Plant or soil water status are required in many scientific fields to understand plant responses to drought. Because the transcriptomic response to abiotic conditions, such as water deficit, reflects plant water status, genomic tools could…
[Abridged] We present a molecular survey of the starless cores L1498 and L1517B. These cores have been selected for their relative isolation and close-to-round shape, and they have been observed in a number of lines of 13 molecular species…
We introduce a computational topology-based approach with unsupervised machine-learning algorithms to estimate the database size and content of RNA-like graph topologies. Specifically, we apply graph theory enumeration to generate all…
Evolutionary modeling applications are the best way to provide full information to support in-depth understanding of evaluation of organisms. These applications mainly depend on identifying the evolutionary history of existing organisms and…
DNA sequencing, especially of microbial genomes and metagenomes, has been at the core of recent research advances in large-scale comparative genomics. The data deluge has resulted in exponential growth in genomic datasets over the past…
Existing fine-grained visual categorization methods often suffer from three challenges: lack of training data, large number of fine-grained categories, and high intraclass vs. low inter-class variance. In this work we propose a generic…
Detailed and systematic understanding of the biological effects of millions of available compounds on living cells is a significant challenge. As most compounds impact multiple targets and pathways, traditional methods for analyzing…
An RNA sequence is a word over an alphabet on four elements $\{A,C,G,U\}$ called bases. RNA sequences fold into secondary structures where some bases match one another while others remain unpaired. Pseudoknot-free secondary structures can…
In this paper, we employ Probabilistic Neural Network (PNN) with image and data processing techniques to implement a general purpose automated leaf recognition algorithm. 12 leaf features are extracted and orthogonalized into 5 principal…