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K Vijay-Shanker - Publications

Affiliations: 
Computer and Information Sciences University of Delaware, Newark, DE, United States 
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33 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2018 Ren J, Li G, Ross K, Arighi C, McGarvey P, Rao S, Cowart J, Madhavan S, Vijay-Shanker K, Wu CH. iTextMine: integrated text-mining system for large-scale knowledge extraction from the literature. Database : the Journal of Biological Databases and Curation. 2018. PMID 30576489 DOI: 10.1093/Database/Bay128  0.436
2018 Ding R, Qu Y, Wu CH, Vijay-Shanker K. Automatic gene annotation using GO terms from cellular component domain. Bmc Medical Informatics and Decision Making. 18: 97-106. PMID 30526566 DOI: 10.1186/S12911-018-0694-7  0.397
2018 Gupta S, Dingerdissen H, Ross KE, Hu Y, Wu CH, Mazumder R, Vijay-Shanker K. DEXTER: Disease-Expression Relation Extraction from Text. Database : the Journal of Biological Databases and Curation. 2018. PMID 29860481 DOI: 10.1093/Database/Bay045  0.386
2017 Ding R, Boutet E, Lieberherr D, Schneider M, Tognolli M, Wu CH, Vijay-Shanker K, Arighi CN. eGenPub, a text mining system for extending computationally mapped bibliography for UniProt Knowledgebase by capturing centrality. Database : the Journal of Biological Databases and Curation. 2017. PMID 29220476 DOI: 10.1093/Database/Bax081  0.38
2017 Huang H, Arighi CN, Ross KE, Ren J, Li G, Chen SC, Wang Q, Cowart J, Vijay-Shanker K, Wu CH. iPTMnet: an integrated resource for protein post-translational modification network discovery. Nucleic Acids Research. PMID 29145615 DOI: 10.1093/Nar/Gkx1104  0.411
2017 Ross KE, Huang H, Ren J, Arighi CN, Li G, Tudor CO, Lv M, Lee JY, Chen SC, Vijay-Shanker K, Wu CH. iPTMnet: Integrative Bioinformatics for Studying PTM Networks. Methods in Molecular Biology (Clifton, N.J.). 1558: 333-353. PMID 28150246 DOI: 10.1007/978-1-4939-6783-4_16  0.38
2017 Wang Q, Ross KE, Huang H, Ren J, Li G, Vijay-Shanker K, Wu CH, Arighi CN. Analysis of Protein Phosphorylation and Its Functional Impact on Protein-Protein Interactions via Text Mining of the Scientific Literature. Methods in Molecular Biology (Clifton, N.J.). 1558: 213-232. PMID 28150240 DOI: 10.1007/978-1-4939-6783-4_10  0.389
2016 Ross KE, Natale DA, Arighi C, Chen SC, Huang H, Li G, Ren J, Wang M, Vijay-Shanker K, Wu CH. Scalable Text Mining Assisted Curation of Post-Translationally Modified Proteoforms in the Protein Ontology. Ceur Workshop Proceedings. 1747. PMID 28706471  0.327
2016 Kim S, Islamaj Doğan R, Chatr-Aryamontri A, Chang CS, Oughtred R, Rust J, Batista-Navarro R, Carter J, Ananiadou S, Matos S, Santos A, Campos D, Oliveira JL, Singh O, Jonnagaddala J, ... ... Vijay-Shanker K, et al. BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID. Database : the Journal of Biological Databases and Curation. 2016. PMID 27589962 DOI: 10.1093/Database/Baw121  0.381
2016 Gupta S, Ross KE, Tudor CO, Wu CH, Schmidt CJ, Vijay-Shanker K. miRiaD: A Text Mining Tool for Detecting Associations of microRNAs with Diseases. Journal of Biomedical Semantics. 7: 9. PMID 27216254 DOI: 10.1186/S13326-015-0044-Y  0.313
2016 Peng Y, Arighi C, Wu CH, Vijay-Shanker K. BioC-compatible full-text passage detection for protein-protein interactions using extended dependency graph. Database : the Journal of Biological Databases and Curation. 2016. PMID 27170286 DOI: 10.1093/Database/Baw072  0.391
2015 Torii M, Arighi CN, Gang Li, Qinghua Wang, Wu CH, Vijay-Shanker K. RLIMS-P 2.0: A Generalizable Rule-Based Information Extraction System for Literature Mining of Protein Phosphorylation Information. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 12: 17-29. PMID 26357075 DOI: 10.1109/Tcbb.2014.2372765  0.447
2015 Ding R, Arighi CN, Lee JY, Wu CH, Vijay-Shanker K. pGenN, a Gene Normalization Tool for Plant Genes and Proteins in Scientific Literature. Plos One. 10: e0135305. PMID 26258475 DOI: 10.1371/Journal.Pone.0135305  0.379
2015 Tudor CO, Ross KE, Li G, Vijay-Shanker K, Wu CH, Arighi CN. Construction of phosphorylation interaction networks by text mining of full-length articles using the eFIP system. Database : the Journal of Biological Databases and Curation. 2015. PMID 25833953 DOI: 10.1093/Database/Bav020  0.393
2014 Peng Y, Torii M, Wu CH, Vijay-Shanker K. A generalizable NLP framework for fast development of pattern-based biomedical relation extraction systems. Bmc Bioinformatics. 15: 285. PMID 25149151 DOI: 10.1186/1471-2105-15-285  0.388
2014 Torii M, Li G, Li Z, Oughtred R, Diella F, Celen I, Arighi CN, Huang H, Vijay-Shanker K, Wu CH. RLIMS-P: an online text-mining tool for literature-based extraction of protein phosphorylation information. Database : the Journal of Biological Databases and Curation. 2014. PMID 25122463 DOI: 10.1093/Database/Bau081  0.343
2014 Peng Y, Tudor CO, Torii M, Wu CH, Vijay-Shanker K. iSimp in BioC standard format: enhancing the interoperability of a sentence simplification system. Database : the Journal of Biological Databases and Curation. 2014. PMID 24850848 DOI: 10.1093/Database/Bau038  0.402
2014 Hill E, Binkley D, Lawrie D, Pollock L, Vijay-Shanker K. An empirical study of identifier splitting techniques Empirical Software Engineering. 19: 1754-1780. DOI: 10.1007/S10664-013-9261-0  0.382
2014 Wang X, Pollock L, Vijay-Shanker K. Automatic segmentation of method code into meaningful blocks: Design and evaluation Journal of Software: Evolution and Process. 26: 27-49. DOI: 10.1002/Smr.1581  0.309
2013 Lopez LD, Yu J, Arighi C, Tudor CO, Torii M, Huang H, Vijay-Shanker K, Wu C. A framework for biomedical figure segmentation towards image-based document retrieval. Bmc Systems Biology. 7: S8. PMID 24565394 DOI: 10.1186/1752-0509-7-S4-S8  0.399
2013 Kern C, González AJ, Liao L, Vijay-Shanker K. Predicting interacting residues using long-distance information and novel decoding in hidden Markov models. Ieee Transactions On Nanobioscience. 12: 158-64. PMID 23955776 DOI: 10.1109/Tnb.2013.2263810  0.303
2012 Tudor CO, Arighi CN, Wang Q, Wu CH, Vijay-Shanker K. The eFIP system for text mining of protein interaction networks of phosphorylated proteins. Database : the Journal of Biological Databases and Curation. 2012: bas044. PMID 23221174 DOI: 10.1093/Database/Bas044  0.448
2010 Tudor CO, Schmidt CJ, Vijay-Shanker K. eGIFT: mining gene information from the literature. Bmc Bioinformatics. 11: 418. PMID 20696046 DOI: 10.1186/1471-2105-11-418  0.323
2008 Fry ZP, Shepherd D, Hill E, Pollock L, Vijay-Shanker K. Analysing source code: Looking for useful verb-direct object pairs in all the right places Iet Software. 2: 27-36. DOI: 10.1049/Iet-Sen:20070112  0.377
2006 Yuan X, Hu ZZ, Wu HT, Torii M, Narayanaswamy M, Ravikumar KE, Vijay-Shanker K, Wu CH. An online literature mining tool for protein phosphorylation. Bioinformatics (Oxford, England). 22: 1668-9. PMID 16644790 DOI: 10.1093/Bioinformatics/Btl159  0.404
2006 Chen J, Bangalore S, Vijay-Shanker K. Automated extraction of tree-adjoining grammars from treebanks Natural Language Engineering. 12: 251-299. DOI: 10.1017/S1351324905003943  0.344
2005 Narayanaswamy M, Ravikumar KE, Vijay-Shanker K. Beyond the clause: extraction of phosphorylation information from medline abstracts. Bioinformatics (Oxford, England). 21: i319-27. PMID 15961474 DOI: 10.1093/Bioinformatics/Bti1011  0.412
2005 Hu ZZ, Narayanaswamy M, Ravikumar KE, Vijay-Shanker K, Wu CH. Literature mining and database annotation of protein phosphorylation using a rule-based system. Bioinformatics (Oxford, England). 21: 2759-65. PMID 15814565 DOI: 10.1093/Bioinformatics/Bti390  0.431
2004 Torii M, Kamboj S, Vijay-Shanker K. Using name-internal and contextual features to classify biological terms. Journal of Biomedical Informatics. 37: 498-511. PMID 15542022 DOI: 10.1016/J.Jbi.2004.08.007  0.373
2002 Torii M, Vijay-Shanker K. Using Unlabeled MEDLINE Abstracts for Biological Named Entity Classification Genome Informatics. 13: 567-568. DOI: 10.11234/Gi1990.13.567  0.304
2001 Carberry S, Vijay-Shanker K, Wilson A, Samuel K. Randomized rule selection in transformation-based learning: a comparative study Natural Language Engineering. 7: 99-116. DOI: 10.1017/S1351324901002662  0.301
2000 Frank R, Kulick S, Vijay-Shanker K. Monotonic C-Command: A New Perspective on Tree Adjoining Grammar Grammars. 3: 151-173. DOI: 10.1023/A:1009984504117  0.305
1994 Vijay-Shanker K, Weir DJ. The equivalence of four extensions of context-free grammars Mathematical Systems Theory. 27: 511-546. DOI: 10.1007/Bf01191624  0.313
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