Ryan Joseph Spurney

College of Engineering

Works (3)

Updated: August 5th, 2023 21:16

2021 article

Gene regulatory networks for compatible versus incompatible grafts identify a role for SlWOX4 during junction formation

Thomas, H., Broeck, L. V., Spurney, R., Sozzani, R., & Frank, M. (2021, September 30). The Plant Cell, Vol. 1.

By: H. Thomas *, L. Broeck n , R. Spurney n, R. Sozzani n  & M. Frank *

MeSH headings : Capsicum / genetics; Capsicum / physiology; Gene Expression Regulation, Plant / physiology; Gene Regulatory Networks; Homeodomain Proteins / genetics; Homeodomain Proteins / metabolism; Solanum lycopersicum / genetics; Solanum lycopersicum / physiology; Plant Proteins / genetics; Plant Proteins / metabolism
topics (OpenAlex): Plant Disease Management Techniques; Plant Virus Research Studies; Nematode management and characterization studies
TL;DR: A model system with Solanum lycopersicum ‘tomato’ and Capsicum annuum ‘pepper’ heterografting is developed, which expresses signs of anatomical junction failure within the first week of grafting, and SlWOX4 is the first gene to be functionally implicated in vegetable crop grafting. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: February 7, 2022

2021 article

Spatiotemporal Gene Expression Profiling and Network Inference: A Roadmap for Analysis, Visualization, and Key Gene Identification

Spurney, R., Schwartz, M., Gobble, M., Sozzani, R., & Broeck, L. V. (2021, January 1). Methods in Molecular Biology.

By: R. Spurney n, M. Schwartz n, M. Gobble n, R. Sozzani n  & L. Broeck  n

author keywords: Gene regulatory network inference; RNA sequencing; Bioinformatics; Network visualization
MeSH headings : Algorithms; Amino Acid Motifs / genetics; Cluster Analysis; Computational Biology / methods; Gene Expression Profiling / methods; Gene Expression Regulation / genetics; Gene Regulatory Networks / genetics; Multigene Family; RNA-Seq / methods; Software; Spatio-Temporal Analysis; Workflow
topics (OpenAlex): Bioinformatics and Genomic Networks; Gene Regulatory Network Analysis; Gene expression and cancer classification
TL;DR: This chapter aims to present a workflow feasible and accessible for plant biologists without a bioinformatics or computer science background and chooses TuxNet, a user-friendly graphical user interface that integrates RNA sequencing data analysis with GRN inference, for the purpose of providing a detailed tutorial. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: October 4, 2021

2019 article

tuxnet : a simple interface to process RNA sequencing data and infer gene regulatory networks

Spurney, R. J., Broeck, L. V., Clark, N. M., Fisher, A. P., Luis Balaguer, M. A., & Sozzani, R. (2019, October 1). The Plant Journal.

By: R. Spurney n, L. Broeck n , N. Clark n, A. Fisher n, M. Luis Balaguer  n & R. Sozzani n 

author keywords: Arabidopsis thaliana; gene regulatory network inference; graphical user interface; RNA sequencing processing; stem cell maintenance; technical advance
MeSH headings : Algorithms; Arabidopsis / genetics; Bayes Theorem; Computational Biology; Gene Expression Regulation, Plant; Gene Regulatory Networks / genetics; Genome, Plant / genetics; Sequence Analysis, RNA; Transcriptome
topics (OpenAlex): Gene expression and cancer classification; Genomics and Phylogenetic Studies; Genomics and Chromatin Dynamics
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: December 9, 2019

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