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For: Mahdi LK, Deihimi T, Zamansani F, Fruzangohar M, Adelson DL, Paton JC, Ogunniyi AD, Ebrahimie E. A functional genomics catalogue of activated transcription factors during pathogenesis of pneumococcal disease. BMC Genomics 2014;15:769. [PMID: 25196724 PMCID: PMC4171566 DOI: 10.1186/1471-2164-15-769] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2014] [Accepted: 09/03/2014] [Indexed: 11/11/2022]  Open
Number Cited by Other Article(s)
1
Sahranavardfard P, Madjd Z, Emami Razavi AN, Ghanadan AR, Firouzi J, Khosravani P, Ghavami S, Ebrahimie E, Ebrahimi M. An Integrative Analysis of The Micro-RNAs Contributing in Stemness, Metastasis and B-Raf Pathways in Malignant Melanoma and Melanoma Stem Cell. CELL JOURNAL 2021;23:261-272. [PMID: 34308569 PMCID: PMC8286452 DOI: 10.22074/cellj.2021.7311] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/08/2019] [Accepted: 04/14/2020] [Indexed: 11/11/2022]
2
Jamalkandi SA, Kouhsar M, Salimian J, Ahmadi A. The identification of co-expressed gene modules in Streptococcus pneumonia from colonization to infection to predict novel potential virulence genes. BMC Microbiol 2020;20:376. [PMID: 33334315 PMCID: PMC7745498 DOI: 10.1186/s12866-020-02059-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Accepted: 12/02/2020] [Indexed: 11/14/2022]  Open
3
Alanazi IO, Al Shehri ZS, Ebrahimie E, Giahi H, Mohammadi-Dehcheshmeh M. Non-coding and coding genomic variants distinguish prostate cancer, castration-resistant prostate cancer, familial prostate cancer, and metastatic castration-resistant prostate cancer from each other. Mol Carcinog 2019;58:862-874. [PMID: 30644608 DOI: 10.1002/mc.22975] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2018] [Revised: 01/07/2019] [Accepted: 01/08/2019] [Indexed: 12/11/2022]
4
Eutsey RA, Woolford CA, Aggarwal SD, Cuevas RA, Hiller NL. Gene Expression Analysis in the Pneumococcus. Methods Mol Biol 2019;1968:79-88. [PMID: 30929207 DOI: 10.1007/978-1-4939-9199-0_7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
5
Mohammadi-Dehcheshmeh M, Niazi A, Ebrahimi M, Tahsili M, Nurollah Z, Ebrahimi Khaksefid R, Ebrahimi M, Ebrahimie E. Unified Transcriptomic Signature of Arbuscular Mycorrhiza Colonization in Roots of Medicago truncatula by Integration of Machine Learning, Promoter Analysis, and Direct Merging Meta-Analysis. FRONTIERS IN PLANT SCIENCE 2018;9:1550. [PMID: 30483277 PMCID: PMC6240842 DOI: 10.3389/fpls.2018.01550] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2018] [Accepted: 10/03/2018] [Indexed: 05/25/2023]
6
Molecular characterization of Brassica napus stress related transcription factors, BnMYB44 and BnVIP1, selected based on comparative analysis of Arabidopsis thaliana and Eutrema salsugineum transcriptomes. Mol Biol Rep 2018;45:1111-1124. [DOI: 10.1007/s11033-018-4262-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Accepted: 07/13/2018] [Indexed: 10/28/2022]
7
Nutritional Regulation of the Sae Two-Component System by CodY in Staphylococcus aureus. J Bacteriol 2018;200:JB.00012-18. [PMID: 29378891 DOI: 10.1128/jb.00012-18] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2018] [Accepted: 01/23/2018] [Indexed: 01/22/2023]  Open
8
Ebrahimie E, Fruzangohar M, Moussavi Nik SH, Newman M. Gene Ontology-Based Analysis of Zebrafish Omics Data Using the Web Tool Comparative Gene Ontology. Zebrafish 2017;14:492-494. [DOI: 10.1089/zeb.2016.1290] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]  Open
9
Chai MH, Weiland F, Harvey RM, Hoffmann P, Ogunniyi AD, Paton JC. Proteomic comparisons of opaque and transparent variants of Streptococcus pneumoniae by two dimensional-differential gel electrophoresis. Sci Rep 2017;7:2453. [PMID: 28550292 PMCID: PMC5446427 DOI: 10.1038/s41598-017-02465-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Accepted: 04/11/2017] [Indexed: 11/09/2022]  Open
10
Watkins ER, Maiden MC, Gupta S. Metabolic competition as a driver of bacterial population structure. Future Microbiol 2016;11:1339-1357. [PMID: 27660887 DOI: 10.2217/fmb-2016-0079] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]  Open
11
Fleming E, Camilli A. ManLMN is a glucose transporter and central metabolic regulator in Streptococcus pneumoniae. Mol Microbiol 2016;102:467-487. [PMID: 27472033 PMCID: PMC5116393 DOI: 10.1111/mmi.13473] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/24/2016] [Indexed: 01/24/2023]
12
In Vitro Analysis of Predicted DNA-Binding Sites for the Stl Repressor of the Staphylococcus aureus SaPIBov1 Pathogenicity Island. PLoS One 2016;11:e0158793. [PMID: 27388898 PMCID: PMC4936726 DOI: 10.1371/journal.pone.0158793] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2016] [Accepted: 06/22/2016] [Indexed: 12/27/2022]  Open
13
Alanazi IO, Ebrahimie E. Computational Systems Biology Approach Predicts Regulators and Targets of microRNAs and Their Genomic Hotspots in Apoptosis Process. Mol Biotechnol 2016;58:460-79. [DOI: 10.1007/s12033-016-9938-x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
14
Dang XY, Chu WW, Shi HC, Yu SG, Han HY, Gu SH, Chen J. Genetic variants in ABCA1 promoter affect transcription activity and plasma HDL level in pigs. Gene 2014;555:414-20. [PMID: 25445391 DOI: 10.1016/j.gene.2014.11.041] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2014] [Revised: 11/11/2014] [Accepted: 11/19/2014] [Indexed: 01/03/2023]
15
A novel pairwise comparison method for in silico discovery of statistically significant cis-regulatory elements in eukaryotic promoter regions: application to Arabidopsis. J Theor Biol 2014;364:364-76. [PMID: 25303887 DOI: 10.1016/j.jtbi.2014.09.038] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2014] [Revised: 09/27/2014] [Accepted: 09/29/2014] [Indexed: 11/22/2022]
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