Comparing gene annotation enrichment tools for functional modeling of agricultural microarray data. - Bart H. J. van den Berg; Chamali Thanthiriwatte; Prashanti Manda; Susan M. Bridges (BMC Bioinform., 2009)

GOModeler- A tool for hypothesis-testing of functional genomics datasets. - Prashanti Manda; McKinley G. Freeman; Susan M. Bridges; T. J. Jankun-Kelly; Bindu Nanduri; Fiona M. McCarthy; Shane C. Burgess (BMC Bioinform., 2010)

AgBase: supporting functional modeling in agricultural organisms. - Fiona M. McCarthy; Cathy R. Gresham; Teresia J. Buza; Philippe Chouvarine; Lakshmi R. Pillai; Ranjit Kumar; Seval Ozkan; Hui Wang; Prashanti Manda; Tony Arick; Susan M. Bridges; Shane C. Burgess (Nucleic Acids Res., 2011)

Interestingness measures and strategies for mining multi-ontology multi-level association rules from gene ontology annotations for the discovery of new GO relationships. - Prashanti Manda; Fiona M. McCarthy; Susan M. Bridges (J. Biomed. Informatics, 2013)

Information Theoretic Interestingness Measures for Cross-Ontology Data Mining in the Mouse Anatomy Ontology and the Gene Ontology. - Prashanti Manda; Fiona M. McCarthy; Bindu Nanduri; Susan M. Bridges (CoRR, 2015)

Measuring the Importance of Annotation Granularity to the Detection of Semantic Similarity Between Phenotype Profiles. - Prashanti Manda; James P. Balhoff; Todd J. Vision (ICBO/BioCreative, 2016)

Investigating the Importance of Anatomical Homology for Cross-Species Phenotype Comparisons Using Semantic Similarity. - Prashanti Manda; Christopher J. Mungall; James P. Balhoff; Hilmar Lapp; Todd J. Vision (PSB, 2016)

The digital revolution in phenotyping. - Anika Oellrich; Nigel Collier; Tudor Groza; Dietrich Rebholz-Schuhmann; Nigam Shah; Olivier Bodenreider; Mary Regina Boland; Ivo I. Georgiev; Hongfang Liu; Kevin M. Livingston; Augustin Luna; Ann-Marie Mallon; et al. (Briefings Bioinform., 2016)

What's Hot and What's Not? - Exploring Trends in Bioinformatics Literature Using Topic Modeling and Keyword Analysis. - Alexander Hahn 002; Somya D. Mohanty; Prashanti Manda (ISBRA, 2017)

Evolution of anatomical concept usage over time: mining 200 years of biodiversity literature. - Prashanti Manda; Todd J. Vision (SBD@SIGMOD, 2017)

Proceedings of the 2017 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. - Jonathan D. Wren; Mikhail G. Dozmorov; Inimary T. Toby; Bindu Nanduri; Ramin Homayouni; Prashanti Manda; Shraddha Thakkar (BMC Bioinform., 2017)

Taking a Dive: Experiments in Deep Learning for Automatic Ontology-Based Annotation of Scientific Literature. - Prashanti Manda; Lucas Beasley; Somya D. Mohanty (ICBO, 2018)

On the Statistical Sensitivity of Semantic Similarity Metrics. - Prashanti Manda; Todd J. Vision (ICBO, 2018)

Annotation of phenotypes using ontologies: a gold standard for the training and evaluation of natural language processing systems. - Wasila M. Dahdul; Prashanti Manda; Hong Cui; James P. Balhoff; T. Alexander Dececchi; Nizar Ibrahim; Hilmar Lapp; Todd J. Vision; Paula M. Mabee (Database J. Biol. Databases Curation, 2018)

Comparison of natural language processing tools for automatic gene ontology annotation of scientific literature. - Lucas Beasley; Prashanti Manda (PeerJ Prepr., 2018)

Phenoscape: Semantic analysis of organismal traits and genes yields insights in evolutionary biology. - Paula M. Mabee; Wasila M. Dahdul; James P. Balhoff; Hilmar Lapp; Prashanti Manda; Josef C. Uyeda; Todd J. Vision; Monte Westerfield (Application of Semantic Technology in Biodiversity Science, 2018)

Ontology-powered Semantic Similarity of Biological and Biomedical Entities - The Story So Far, and The Road Ahead. - Prashanti Manda (BIOINFORMATICS, 2019)

Proceedings of the 2018 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. - Jonathan D. Wren; Robert J. Doerksen; Inimary T. Toby; Bindu Nanduri; Ramin Homayouni; Prashanti Manda; Shraddha Thakkar (BMC Bioinform., 2019)

Avoiding "conflicts of interest": a computational approach to scheduling parallel conference tracks and its human evaluation. - Prashanti Manda; Alexander Hahn 002; Katherine Beekman; Todd J. Vision (PeerJ Comput. Sci., 2019)

Avoiding "conflicts of interest": A computational approach to scheduling parallel conference tracks and its human evaluation. - Prashanti Manda; Alexander Hahn 002; Katherine Lamm; Scott Provan; Todd J. Vision (PeerJ Prepr., 2019)

A multi-modal machine learning approach towards predicting patient readmission. - Somya D. Mohanty; Thomas P. McCoy; Prashanti Manda; Deborah Lekan; Marjorie Jenkins (BIBM, 2020)

Automated ontology-based annotation of scientific literature using deep learning. - Prashanti Manda; Saed SayedAhmed; Somya D. Mohanty (SBD@SIGMOD, 2020)

Data mining powered by the gene ontology. - Prashanti Manda (WIREs Data Mining Knowl. Discov., 2020)

Knowledge of the Ancestors: Intelligent Ontology-aware Annotation of Biological Literature using Semantic Similarity. - Pratik Devkota; Somya D. Mohanty; Prashanti Manda (ICBO, 2022)

A Gated Recurrent Unit based architecture for recognizing ontology concepts from biological literature. - Pratik Devkota; Somya D. Mohanty; Prashanti Manda (BioData Min., 2022)

Editorial: Unleashing Innovation on Precision Public Health-Highlights From the MCBIOS and MAQC 2021 Joint Conference. - Ramin Homayouni; Huixiao Hong; Prashanti Manda; Bindu Nanduri; Inimary T. Toby (Frontiers Artif. Intell., 2022)

Machine learning for predicting readmission risk among the frail: Explainable AI for healthcare. - Somya D. Mohanty; Deborah Lekan; Thomas P. McCoy; Marjorie Jenkins; Prashanti Manda (Patterns, 2022)

Ontology-Powered Boosting for Improved Recognition of Ontology Concepts from Biological Literature. - Pratik Devkota; Somya D. Mohanty; Prashanti Manda (BIOINFORMATICS, 2023)

Using Ontology Embeddings With Deep Learning Architectures to Improve Prediction of Ontology Concepts From Literature. - Pratik Devkota; Somya D. Mohanty; Prashanti Manda (ICBO, 2023)

Editorial: AI and data science in drug development and public health: Highlights from the MCBIOS 2022 conference. - Ramin Homayouni; Prashanti Manda; Aik Choon Tan; Zhaohui S. Qin (Frontiers Big Data, 2023)

Leveraging Large Language Models and RNNs for Accurate Ontology-Based Text Annotation. - Pratik Devkota; Somya D. Mohanty; Prashanti Manda (BIOSTEC (1), 2025)

Automated SNOMED CT Concept Annotation in Clinical Text Using Bi-GRU Neural Networks. - Ali Noori; Pratik Devkota; Somya D. Mohanty; Prashanti Manda (CoRR, 2025)