Search Results - "Kochut, Krzysztof J."

Predicting protein and pathway associations for understudied dark kinases using pattern-constrained knowledge graph embedding by Salcedo, Mariah V, Gravel, Nathan, Keshavarzi, Abbas, Huang, Liang-Chin, Kochut, Krzysztof J, Kannan, Natarajan

“…The 534 protein kinases encoded in the human genome constitute a large druggable class of proteins that include both well-studied and understudied "dark"…”
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Dark kinase annotation, mining, and visualization using the Protein Kinase Ontology by Soleymani, Saber, Gravel, Nathan, Huang, Liang-Chin, Yeung, Wayland, Bozorgi, Elika, Bendzunas, Nathaniel G, Kochut, Krzysztof J, Kannan, Natarajan

“…The Protein Kinase Ontology (ProKinO) is an integrated knowledge graph that conceptualizes the complex relationships among protein kinase sequence, structure,…”
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KinView: a visual comparative sequence analysis tool for integrated kinome research by McSkimming, Daniel Ian, Dastgheib, Shima, Baffi, Timothy R, Byrne, Dominic P, Ferries, Samantha, Scott, Steven Thomas, Newton, Alexandra C, Eyers, Claire E, Kochut, Krzysztof J, Eyers, Patrick A, Kannan, Natarajan

“…Multiple sequence alignments (MSAs) are a fundamental analysis tool used throughout biology to investigate relationships between protein sequence, structure,…”
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GTXplorer: A portal to navigate and visualize the evolutionary information encoded in fold A glycosyltransferases by Taujale, Rahil, Soleymani, Saber, Priyadarshi, Amitabh, Venkat, Aarya, Yeung, Wayland, Kochut, Krzysztof J, Kannan, Natarajan

“…Abstract Glycosyltransferases (GTs) play a central role in sustaining all forms of life through the biosynthesis of complex carbohydrates. Despite significant…”
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Integrative annotation and knowledge discovery of kinase post-translational modifications and cancer-associated mutations through federated protein ontologies and resources by Huang, Liang-Chin, Ross, Karen E., Baffi, Timothy R., Drabkin, Harold, Kochut, Krzysztof J., Ruan, Zheng, D’Eustachio, Peter, McSkimming, Daniel, Arighi, Cecilia, Chen, Chuming, Natale, Darren A., Smith, Cynthia, Gaudet, Pascale, Newton, Alexandra C., Wu, Cathy, Kannan, Natarajan

“…Many bioinformatics resources with unique perspectives on the protein landscape are currently available. However, generating new knowledge from these resources…”
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WawPart: Workload-Aware Partitioning of Knowledge Graphs by Priyadarshi, Amitabh, Kochut, Krzysztof J

“…Large-scale datasets in the form of knowledge graphs are often used in numerous domains, today. A knowledge graphs size often exceeds the capacity of a single…”
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AWAPart: Adaptive Workload-Aware Partitioning of Knowledge Graphs by Priyadarshi, Amitabh, Kochut, Krzysztof J

“…Large-scale knowledge graphs are increasingly common in many domains. Their large sizes often exceed the limits of systems storing the graphs in a centralized…”
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Multiple Relations Classification using Imbalanced Predictions Adaptation by Alqaaidi, Sakher Khalil, Bozorgi, Elika, Kochut, Krzysztof J

“…The relation classification task assigns the proper semantic relation to a pair of subject and object entities; the task plays a crucial role in various text…”
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