Author

Ankith Uppunda

University of California, Los Angeles

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Approach:machine learning (classical)· 1 Assay:protein sequence· 1 Research Focus:protein structure prediction· 1 Approach:statistical model· 1

Frequent Co-Authors

Dat DuongiD· 2 shared Eleazar EskiniD· 2 shared Jingyi Jessica LiiD· 2 shared Kai-Wei ChangiD· 2 shared Lisa GaiiD· 2 shared Chelsea J.‐T. JuiD· 1 shared D. Q. Le· 1 shared James ZhangiD· 1 shared

Activity by Year

2020-2020 · peak 2/yr

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9 top collaborators · 33 mutual co-author links

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2 shared papersBioinformatics

Dat DuongORCID

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2 papers

Recent·Most cited

Annotating Gene Ontology terms for protein sequences with the Transformer model

Dat Duong, Lisa Gai, Ankith Uppunda, D. Q. Le, Eleazar Eskin, Jingyi Jessica Li, Kai-Wei Chang

The paper introduces a Transformer-based model for annotating Gene Ontology terms in protein sequences, showing improved accuracy over CNN-based methods and incorporating additional features like BLAST motifs and structural data.

bioRxiv · Jan 31, 2020 · PreprintBioinformatics

Evaluating Representations for Gene Ontology Terms

Dat Duong, Ankith Uppunda, Lisa Gai, Chelsea J.‐T. Ju, James Zhang, Muhao Chen, Eleazar Eskin, Jingyi Jessica Li, Kai-Wei Chang

This paper evaluates neural network models for embedding Gene Ontology terms and introduces new models based on GCN, ELMo, and BERT, finding that BERT-based embeddings perform best for rare labels.

bioRxiv · Jan 31, 2020 · PreprintBioinformatics