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For: Brinkac LM, Davidsen T, Beck E, Ganapathy A, Caler E, Dodson RJ, Durkin AS, Harkins DM, Lorenzi H, Madupu R, Sebastian Y, Shrivastava S, Thiagarajan M, Orvis J, Sundaram JP, Crabtree J, Galens K, Zhao Y, Inman JM, Montgomery R, Schobel S, Galinsky K, Tanenbaum DM, Resnick A, Zafar N, White O, Sutton G. Pathema: a clade-specific bioinformatics resource center for pathogen research. Nucleic Acids Res 2009;38:D408-14. [PMID: 19843611 PMCID: PMC2808925 DOI: 10.1093/nar/gkp850] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 11/12/2022]  Open
Number Cited by Other Article(s)
1
Trasviña-Arenas CH, Lopez-Castillo LM, Sanchez-Sandoval E, Brieba LG. Dispensability of the [4Fe-4S] cluster in novel homologues of adenine glycosylase MutY. FEBS J 2016;283:521-40. [PMID: 26613369 DOI: 10.1111/febs.13608] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 05/30/2015] [Revised: 11/15/2015] [Accepted: 11/24/2015] [Indexed: 01/31/2023]
2
Castro-Nallar E, Hasan NA, Cebula TA, Colwell RR, Robison RA, Johnson WE, Crandall KA. Concordance and discordance of sequence survey methods for molecular epidemiology. PeerJ 2015;3:e761. [PMID: 25737810 PMCID: PMC4338773 DOI: 10.7717/peerj.761] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 09/29/2014] [Accepted: 01/21/2015] [Indexed: 12/23/2022]  Open
3
Challacombe JF, Stubben CJ, Klimko CP, Welkos SL, Kern SJ, Bozue JA, Worsham PL, Cote CK, Wolfe DN. Interrogation of the Burkholderia pseudomallei genome to address differential virulence among isolates. PLoS One 2014;9:e115951. [PMID: 25536074 PMCID: PMC4275268 DOI: 10.1371/journal.pone.0115951] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 06/17/2014] [Accepted: 12/01/2014] [Indexed: 11/18/2022]  Open
4
Crisóstomo-Vázquez MDP, Marevelez-Acosta VA, Flores-Luna A, Jiménez-Cardoso E. The MAK16 gene of Entamoeba histolytica and its identification in isolates from patients. THE KOREAN JOURNAL OF PARASITOLOGY 2014;52:429-33. [PMID: 25246723 PMCID: PMC4170040 DOI: 10.3347/kjp.2014.52.4.429] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Academic Contribution Register] [Received: 09/20/2013] [Revised: 05/28/2014] [Accepted: 06/04/2014] [Indexed: 02/02/2023]
5
Memišević V, Kumar K, Cheng L, Zavaljevski N, DeShazer D, Wallqvist A, Reifman J. DBSecSys: a database of Burkholderia mallei secretion systems. BMC Bioinformatics 2014;15:244. [PMID: 25030112 PMCID: PMC4112206 DOI: 10.1186/1471-2105-15-244] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 04/07/2014] [Accepted: 06/16/2014] [Indexed: 01/08/2023]  Open
6
Faisal Tarique K, Arif Abdul Rehman S, Gourinath S. Structural elucidation of a dual-activity PAP phosphatase-1 from Entamoeba histolytica capable of hydrolysing both 3'-phosphoadenosine 5'-phosphate and inositol 1,4-bisphosphate. ACTA ACUST UNITED AC 2014;70:2019-31. [PMID: 25004978 DOI: 10.1107/s1399004714010268] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 03/21/2014] [Accepted: 05/06/2014] [Indexed: 12/28/2022]
7
Stubben CJ, Micheva-Viteva SN, Shou Y, Buddenborg SK, Dunbar JM, Hong-Geller E. Differential expression of small RNAs from Burkholderia thailandensis in response to varying environmental and stress conditions. BMC Genomics 2014;15:385. [PMID: 24884623 PMCID: PMC4035088 DOI: 10.1186/1471-2164-15-385] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 12/13/2013] [Accepted: 05/06/2014] [Indexed: 11/10/2022]  Open
8
Prioritizing drug targets in Clostridium botulinum with a computational systems biology approach. Genomics 2014;104:24-35. [PMID: 24837790 DOI: 10.1016/j.ygeno.2014.05.002] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 03/24/2014] [Revised: 04/25/2014] [Accepted: 05/05/2014] [Indexed: 11/23/2022]
9
Stubben CJ, Challacombe JF. Mining locus tags in PubMed Central to improve microbial gene annotation. BMC Bioinformatics 2014;15:43. [PMID: 24499370 PMCID: PMC3937057 DOI: 10.1186/1471-2105-15-43] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 06/06/2013] [Accepted: 01/18/2014] [Indexed: 11/10/2022]  Open
10
Memišević V, Zavaljevski N, Pieper R, Rajagopala SV, Kwon K, Townsend K, Yu C, Yu X, DeShazer D, Reifman J, Wallqvist A. Novel Burkholderia mallei virulence factors linked to specific host-pathogen protein interactions. Mol Cell Proteomics 2013;12:3036-51. [PMID: 23800426 PMCID: PMC3820922 DOI: 10.1074/mcp.m113.029041] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 03/08/2013] [Revised: 06/10/2013] [Indexed: 11/09/2022]  Open
11
Wilson IW, Weedall GD, Hall N. Host-Parasite interactions in Entamoeba histolytica and Entamoeba dispar: what have we learned from their genomes? Parasite Immunol 2012;34:90-9. [PMID: 21810102 PMCID: PMC3378717 DOI: 10.1111/j.1365-3024.2011.01325.x] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 01/11/2023]
12
Zhu B, Zhou S, Lou M, Zhu J, Li B, Xie G, Jin G, De Mot R. Characterization and inference of gene gain/loss along burkholderia evolutionary history. Evol Bioinform Online 2011;7:191-200. [PMID: 22084562 PMCID: PMC3210638 DOI: 10.4137/ebo.s7510] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 01/10/2023]  Open
13
Henkel JS, Tepp WH, Przedpelski A, Fritz RB, Johnson EA, Barbieri JT. Subunit vaccine efficacy against Botulinum neurotoxin subtypes. Vaccine 2011;29:7688-95. [PMID: 21839134 DOI: 10.1016/j.vaccine.2011.07.134] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 05/28/2011] [Revised: 07/27/2011] [Accepted: 07/29/2011] [Indexed: 10/17/2022]
14
Aurrecoechea C, Barreto A, Brestelli J, Brunk BP, Caler EV, Fischer S, Gajria B, Gao X, Gingle A, Grant G, Harb OS, Heiges M, Iodice J, Kissinger JC, Kraemer ET, Li W, Nayak V, Pennington C, Pinney DF, Pitts B, Roos DS, Srinivasamoorthy G, Stoeckert CJ, Treatman C, Wang H. AmoebaDB and MicrosporidiaDB: functional genomic resources for Amoebozoa and Microsporidia species. Nucleic Acids Res 2010;39:D612-9. [PMID: 20974635 PMCID: PMC3013638 DOI: 10.1093/nar/gkq1006] [Citation(s) in RCA: 93] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 02/03/2023]  Open
15
Systems-level metabolic flux profiling elucidates a complete, bifurcated tricarboxylic acid cycle in Clostridium acetobutylicum. J Bacteriol 2010;192:4452-61. [PMID: 20622067 DOI: 10.1128/jb.00490-10] [Citation(s) in RCA: 111] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 12/18/2022]  Open
16
Orvis J, Crabtree J, Galens K, Gussman A, Inman JM, Lee E, Nampally S, Riley D, Sundaram JP, Felix V, Whitty B, Mahurkar A, Wortman J, White O, Angiuoli SV. Ergatis: a web interface and scalable software system for bioinformatics workflows. Bioinformatics 2010;26:1488-92. [PMID: 20413634 PMCID: PMC2881353 DOI: 10.1093/bioinformatics/btq167] [Citation(s) in RCA: 79] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Indexed: 11/12/2022]  Open
17
Salimi N, Fleri W, Peters B, Sette A. Design and utilization of epitope-based databases and predictive tools. Immunogenetics 2010;62:185-96. [PMID: 20213141 PMCID: PMC2843836 DOI: 10.1007/s00251-010-0435-2] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Academic Contribution Register] [Received: 11/25/2009] [Accepted: 02/11/2010] [Indexed: 11/30/2022]
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