Kristina Gruden

The paper introduces LongPolyASE, a framework for allele-specific gene and isoform analysis in polyploids using long-read RNA-seq, demonstrating its application on rice and potato.

This study demonstrates multiplexing fluorescent biosensors in plants using linear unmixing and provides a MATLAB tool for quantification.

This study predicts potato yield using drone and environmental data early in the growing season, achieving over 80% accuracy with models trained on limited data.

BoolDog is a Python package for Boolean and semi-quantitative network modeling, enabling simulation, analysis, and integration with continuous ODE systems.

The paper identifies miR160's role in regulating class III peroxidase via StARF10/17 and its integration of SA and ROS signaling during potato hypersensitive response to PVY.

This study identifies the N-terminal region of PVY coat protein as critical for cell-to-cell movement and systemic spread in Nicotiana clevelandii plants.

The paper develops a genome-scale metabolic model for potato to study growth-defence trade-offs by integrating primary and secondary metabolism and applying transcriptomics data from stress experiments.

The paper identifies StPTI5 as a transcription factor that regulates plant-microbe interactions by modulating immune responses and microbial colonization in potato.

The paper integrates multi-omics and phenotyping data to identify molecular signatures of potato responses to abiotic stresses.

This study shows that ethylene signaling is essential for mycorrhiza-induced resistance in tomato against chewing herbivores, revealing hormone crosstalk as central to this defense mechanism.

This paper presents a haplotype-resolved genome assembly for the tetraploid potato cultivar Desiree, along with annotations and epigenetic data, providing a resource for potato research.

The paper unifies potato gene models using an Apollo web server and provides a collaborative genome browser for annotation updates.

The paper introduces Stress Knowledge Map, a resource with two knowledge graphs for plant stress responses, and demonstrates its use in hypothesis generation and analysis.

pISA-tree organizes life science research data using a standardized directory structure based on the ISA model, enabling metadata generation and integration with bioinformatics pipelines and repositories.

The paper integrates prior knowledge and ensemble networks to reveal a novel connection between ethylene and salicylic acid signalling modules in potato.

The paper presents the genome of the Colorado potato beetle to study its rapid evolutionary changes, herbivory adaptations, and insecticide resistance mechanisms.