My Bibliography

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Patel JM. The role of declarative querying in bioinformatics. OMICS. 2003 Spring;7(1):89-91. doi: 10.1089/153623103322006670. PubMed PMID: 12831563.

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Kim YJ, Boyd A, Athey BD, Patel JM. miBLAST: scalable evaluation of a batch of nucleotide sequence queries with BLAST. Nucleic Acids Res. 2005;33(13):4335-44. doi: 10.1093/nar/gki739. Print 2005. PubMed PMID: 16061938; PubMed Central PMCID: PMC1182166.

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Kim YJ, Patel JM. A framework for protein structure classification and identification of novel protein structures. BMC Bioinformatics. 2006 Oct 16;7:456. doi: 10.1186/1471-2105-7-456. PubMed PMID: 17042958; PubMed Central PMCID: PMC1622760.

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Morse M, Patel JM, Grosky WI. Efficient evaluation of radial queries using the target tree. Int J Bioinform Res Appl. 2007;3(1):24-41. doi: 10.1504/IJBRA.2007.011833. PubMed PMID: 18048171.

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Tian Y, McEachin RC, Santos C, States DJ, Patel JM. SAGA: a subgraph matching tool for biological graphs. Bioinformatics. 2007 Jan 15;23(2):232-9. doi: 10.1093/bioinformatics/btl571. Epub 2006 Nov 16. PubMed PMID: 17110368.

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Ying X, Kim YJ, Mao Y, Liu M, Hou Y, Li H, Wang X, Zhao Y, Zhao D, Patel JM, Li W. BatchGenAna: a batch platform for large-scale genomic analysis of mammalian small RNAs. Bioinformation. 2009 Apr 21;3(8):346-8. doi: 10.6026/97320630003346. PubMed PMID: 19707298; PubMed Central PMCID: PMC2720670.

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Kim YJ, Teletia N, Ruotti V, Maher CA, Chinnaiyan AM, Stewart R, Thomson JA, Patel JM. ProbeMatch: rapid alignment of oligonucleotides to genome allowing both gaps and mismatches. Bioinformatics. 2009 Jun 1;25(11):1424-5. doi: 10.1093/bioinformatics/btp178. Epub 2009 Apr 7. PubMed PMID: 19351619; PubMed Central PMCID: PMC2682521.

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Ilgen MA, Downing K, Zivin K, Hoggatt KJ, Kim HM, Ganoczy D, Austin KL, McCarthy JF, Patel JM, Valenstein M. Exploratory data mining analysis identifying subgroups of patients with depression who are at high risk for suicide. J Clin Psychiatry. 2009 Nov;70(11):1495-500. doi: 10.4088/JCP.08m04795. PubMed PMID: 20031094; PubMed Central PMCID: PMC3057750.

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Hodgin JB, Nair V, Zhang H, Randolph A, Harris RC, Nelson RG, Weil EJ, Cavalcoli JD, Patel JM, Brosius FC 3rd, Kretzler M. Identification of cross-species shared transcriptional networks of diabetic nephropathy in human and mouse glomeruli. Diabetes. 2013 Jan;62(1):299-308. doi: 10.2337/db11-1667. Epub 2012 Nov 8. PubMed PMID: 23139354; PubMed Central PMCID: PMC3526018.