Ultrawrap: SPARQL execution on relational data von Sequeda, Juan F., Miranker, Daniel P.

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Survey of directly mapping SQL databases to the Semantic Web von Sequeda, Juan F., Tirmizi, Syed Hamid, Corcho, Oscar, Miranker, Daniel P.

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ADaM: augmenting existing approximate fast matching algorithms with efficient and exact range queries von Clement, Nathan L, Thompson, Lee P, Miranker, Daniel P

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Mining gene functional networks to improve mass-spectrometry-based protein identification von Ramakrishnan, Smriti R., Vogel, Christine, Kwon, Taejoon, Penalva, Luiz O., Marcotte, Edward M., Miranker, Daniel P.

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Two accurate sequence, structure, and phylogenetic template-based RNA alignment systems von Shang, Lei, Gardner, David P, Xu, Weijia, Cannone, Jamie J, Miranker, Daniel P, Ozer, Stuart, Gutell, Robin R

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Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining von Morgan, Xochitl C, Ni, Shulin, Miranker, Daniel P, Iyer, Vishwanath R

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Integrating shotgun proteomics and mRNA expression data to improve protein identification von Ramakrishnan, Smriti R., Vogel, Christine, Prince, John T., Wang, Rong, Li, Zhihua, Penalva, Luiz O., Myers, Margaret, Marcotte, Edward M., Miranker, Daniel P.

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Mapping between the OBO and OWL ontology languages von Tirmizi, Syed Hamid, Aitken, Stuart, Moreira, Dilvan A, Mungall, Chris, Sequeda, Juan, Shah, Nigam H, Miranker, Daniel P

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Pivot selection: Dimension reduction for distance-based indexing von Mao, Rui, Miranker, Willard L., Miranker, Daniel P.

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Biclustering as a method for RNA local multiple sequence alignment von Wang, Shu, Gutell, Robin R., Miranker, Daniel P.

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An unsupervised instance matcher for schema-free RDF data von Kejriwal, Mayank, Miranker, Daniel P.

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A Pay-As-You-Go Methodology for Ontology-Based Data Access von Sequeda, Juan F., Miranker, Daniel P.

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A metric model of amino acid substitution von Xu, Weijia, Miranker, Daniel P.

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Treat: A New and Efficient Match Algorithm for AI Production System von Miranker, Daniel P

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Schema driven assignment and implementation of life science identifiers (LSIDs) von Bafna, Sapna, Humphries, Julian, Miranker, Daniel P.

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A fast coarse filtering method for peptide identification by mass spectrometry von Ramakrishnan, Smriti R., Mao, Rui, Nakorchevskiy, Aleksey A., Prince, John T., Willard, Willard S., Xu, Weijia, Marcotte, Edward M., Miranker, Daniel P.

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SPHINX: Schema integration by example von Barbançon, Francois, Miranker, Daniel P.

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On a model of indexability and its bounds for range queries von Hellerstein, Joseph M, Koutsoupias, Elias, Miranker, Daniel P, Papadimitriou, Christos H, Samoladas, Vasilis

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TREAT: A New and Efficient Match Algorithm for AI Production System von Miranker, Daniel P

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Using MoBIoS' scalable genome join to find conserved primer pair candidates between two genomes von Xu, Weijia, Briggs, Willard J., Padolina, Joanna, Timme, Ruth E., Liu, Wenguo, Linder, C. Randal, Miranker, Daniel P.

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