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SNIT: SNP identification for strain typing.
Vijaya Satya R, Zavaljevski N, Reifman J. Vijaya Satya R, et al. Source Code Biol Med. 2011 Sep 8;6:14. doi: 10.1186/1751-0473-6-14. Source Code Biol Med. 2011. PMID: 21902825 Free PMC article.
DBSecSys 2.0: a database of Burkholderia mallei and Burkholderia pseudomallei secretion systems.
Memišević V, Kumar K, Zavaljevski N, DeShazer D, Wallqvist A, Reifman J. Memišević V, et al. Among authors: zavaljevski n. BMC Bioinformatics. 2016 Sep 20;17:387. doi: 10.1186/s12859-016-1242-z. BMC Bioinformatics. 2016. PMID: 27650316 Free PMC article.
DBSecSys: a database of Burkholderia mallei secretion systems.
Memišević V, Kumar K, Cheng L, Zavaljevski N, DeShazer D, Wallqvist A, Reifman J. Memišević V, et al. Among authors: zavaljevski n. BMC Bioinformatics. 2014 Jul 16;15(1):244. doi: 10.1186/1471-2105-15-244. BMC Bioinformatics. 2014. PMID: 25030112 Free PMC article.
QuartetS: a fast and accurate algorithm for large-scale orthology detection.
Yu C, Zavaljevski N, Desai V, Reifman J. Yu C, et al. Nucleic Acids Res. 2011 Jul;39(13):e88. doi: 10.1093/nar/gkr308. Epub 2011 May 13. Nucleic Acids Res. 2011. PMID: 21572104 Free PMC article.
AGeS: a software system for microbial genome sequence annotation.
Kumar K, Desai V, Cheng L, Khitrov M, Grover D, Satya RV, Yu C, Zavaljevski N, Reifman J. Kumar K, et al. PLoS One. 2011 Mar 7;6(3):e17469. doi: 10.1371/journal.pone.0017469. PLoS One. 2011. PMID: 21408217 Free PMC article.
A high-throughput pipeline for the design of real-time PCR signatures.
Vijaya Satya R, Kumar K, Zavaljevski N, Reifman J. Vijaya Satya R, et al. BMC Bioinformatics. 2010 Jun 23;11:340. doi: 10.1186/1471-2105-11-340. BMC Bioinformatics. 2010. PMID: 20573238 Free PMC article.
In silico microarray probe design for diagnosis of multiple pathogens.
Vijaya Satya R, Zavaljevski N, Kumar K, Bode E, Padilla S, Wasieloski L, Geyer J, Reifman J. Vijaya Satya R, et al. BMC Genomics. 2008 Oct 21;9:496. doi: 10.1186/1471-2164-9-496. BMC Genomics. 2008. PMID: 18940003 Free PMC article.
Oligonucleotide fingerprint identification for microarray-based pathogen diagnostic assays.
Tembe W, Zavaljevski N, Bode E, Chase C, Geyer J, Wasieloski L, Benson G, Reifman J. Tembe W, et al. Bioinformatics. 2007 Jan 1;23(1):5-13. doi: 10.1093/bioinformatics/btl549. Epub 2006 Oct 26. Bioinformatics. 2007. PMID: 17068088
A high-throughput pipeline for designing microarray-based pathogen diagnostic assays.
Vijaya Satya R, Zavaljevski N, Kumar K, Reifman J. Vijaya Satya R, et al. BMC Bioinformatics. 2008 Apr 10;9:185. doi: 10.1186/1471-2105-9-185. BMC Bioinformatics. 2008. PMID: 18402679 Free PMC article.
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