Gravel N - Search Results

1

Dark kinase annotation, mining, and visualization using the Protein Kinase Ontology.

Soleymani S, Gravel N, Huang LC, Yeung W, Bozorgi E, Bendzunas NG, Kochut KJ, Kannan N. Soleymani S, et al. Among authors: gravel n. PeerJ. 2023 Dec 5;11:e16087. doi: 10.7717/peerj.16087. eCollection 2023. PeerJ. 2023. PMID: 38077442 Free PMC article.

2

KinOrtho: a method for mapping human kinase orthologs across the tree of life and illuminating understudied kinases.

Huang LC, Taujale R, Gravel N, Venkat A, Yeung W, Byrne DP, Eyers PA, Kannan N. Huang LC, et al. Among authors: gravel n. BMC Bioinformatics. 2021 Sep 18;22(1):446. doi: 10.1186/s12859-021-04358-3. BMC Bioinformatics. 2021. PMID: 34537014 Free PMC article.

3

Modularity of the hydrophobic core and evolution of functional diversity in fold A glycosyltransferases.

Venkat A, Tehrani D, Taujale R, Yeung W, Gravel N, Moremen KW, Kannan N. Venkat A, et al. Among authors: gravel n. J Biol Chem. 2022 Aug;298(8):102212. doi: 10.1016/j.jbc.2022.102212. Epub 2022 Jun 30. J Biol Chem. 2022. PMID: 35780833 Free PMC article.

4

Tree visualizations of protein sequence embedding space enable improved functional clustering of diverse protein superfamilies.

Yeung W, Zhou Z, Mathew L, Gravel N, Taujale R, O'Boyle B, Salcedo M, Venkat A, Lanzilotta W, Li S, Kannan N. Yeung W, et al. Among authors: gravel n. Brief Bioinform. 2023 Jan 19;24(1):bbac619. doi: 10.1093/bib/bbac619. Brief Bioinform. 2023. PMID: 36642409 Free PMC article.

5

Phosformer: an explainable transformer model for protein kinase-specific phosphorylation predictions.

Zhou Z, Yeung W, Gravel N, Salcedo M, Soleymani S, Li S, Kannan N. Zhou Z, et al. Among authors: gravel n. Bioinformatics. 2023 Feb 3;39(2):btad046. doi: 10.1093/bioinformatics/btad046. Bioinformatics. 2023. PMID: 36692152 Free PMC article.

6

Mechanistic and evolutionary insights into isoform-specific 'supercharging' in DCLK family kinases.

Venkat A, Watterson G, Byrne DP, O'Boyle B, Shrestha S, Gravel N, Fairweather EE, Daly LA, Bunn C, Yeung W, Aggarwal I, Katiyar S, Eyers CE, Eyers PA, Kannan N. Venkat A, et al. Among authors: gravel n. bioRxiv [Preprint]. 2023 Jul 18:2023.03.29.534689. doi: 10.1101/2023.03.29.534689. bioRxiv. 2023. Update in: Elife. 2023 Oct 26;12:RP87958. doi: 10.7554/eLife.87958 PMID: 37034755 Free PMC article. Updated. Preprint.

7

Predicting protein and pathway associations for understudied dark kinases using pattern-constrained knowledge graph embedding.

Salcedo MV, Gravel N, Keshavarzi A, Huang LC, Kochut KJ, Kannan N. Salcedo MV, et al. Among authors: gravel n. PeerJ. 2023 Oct 18;11:e15815. doi: 10.7717/peerj.15815. eCollection 2023. PeerJ. 2023. PMID: 37868056 Free PMC article.

8

Mechanistic and evolutionary insights into isoform-specific 'supercharging' in DCLK family kinases.

Venkat A, Watterson G, Byrne DP, O'Boyle B, Shrestha S, Gravel N, Fairweather EE, Daly LA, Bunn C, Yeung W, Aggarwal I, Katiyar S, Eyers CE, Eyers PA, Kannan N. Venkat A, et al. Among authors: gravel n. Elife. 2023 Oct 26;12:RP87958. doi: 10.7554/eLife.87958. Elife. 2023. PMID: 37883155 Free PMC article.

9

Using explainable machine learning to uncover the kinase-substrate interaction landscape.

Zhou Z, Yeung W, Soleymani S, Gravel N, Salcedo M, Li S, Kannan N. Zhou Z, et al. Among authors: gravel n. Bioinformatics. 2024 Feb 1;40(2):btae033. doi: 10.1093/bioinformatics/btae033. Bioinformatics. 2024. PMID: 38244571 Free PMC article.

10

Informatic challenges and advances in illuminating the druggable proteome.

Taujale R, Gravel N, Zhou Z, Yeung W, Kochut K, Kannan N. Taujale R, et al. Among authors: gravel n. Drug Discov Today. 2024 Mar;29(3):103894. doi: 10.1016/j.drudis.2024.103894. Epub 2024 Jan 22. Drug Discov Today. 2024. PMID: 38266979 Free article. Review.

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