✎ people:ramirez [Molecular Microbiology and Infection Unit]

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====== Mário Ramirez ======
{{:people:ramirez.jpeg|}} 
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[[http://orcid.org/0000-0002-4084-6233|{{:people:orcid-logo.png?150|0000-0002-4084-6233}}]]
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===== Current Position =====
**Associate Professor** ("com agregação")\\ 
Instituto de Microbiologia,[[http://www.fm.ul.pt/|Faculdade de Medicina de Lisboa]], [[http://www.ul.pt/|Universidade de Lisboa]], Lisboa, Portugal\\ 

**Laboratory Head**\\ 
[[http://www.imm.fm.ul.pt/web/imm/molecularmicrobiologyandinfection|Molecular Microbiology and Infection Unit]], [[http://www.imm.fm.ul.pt/web/imm/home|Instituto de Medicina Molecular]], Lisboa, Portugal\\

===== Previous Positions =====
**Assistant Professor of Microbiology**, Instituto de Microbiologia,[[http://www.medicina.ulisboa.pt/|Faculdade de Medicina de Lisboa]], [[http://www.ulisboa.pt//|Universidade de Lisboa]], Lisboa, Portugal\\
**Post-Doc**, [[http://www.itqb.unl.pt/|Instituto de Tecnologia Química e Biológica]], Oeiras, Portugal\\
**Guest Investigator**, [[http://www.rockefeller.edu/|The Rockefeller University]], NY, USA

===== Research Interests =====
**Biology** : Clinical Microbiology, Microbial Evolution, Population Biology, Molecular Epidemiology, Microbial Typing methods\\
**Mathematical and computational biology** : Univariate/Multivariate Statistics for Data Analysis, Graph theory, Resampling Methods, Congruence Measurements, Evolutionary Models\\
===== Websites =====
[[http://patlas.site|pAtlas]] - A plasmid database developed in the lab to facilitate plasmid detection in high-throughput data and the exploration of plasmid space.

[[http://www.phyloviz.net|PHYLOViZ]] - a software allowing the visualization of accessory epidemiological data together with evolutionary hypothesis derived from MLST, MLVA or SNP data developed in the lab in collaboration with INESC.

[[http://www.comparingpartitions.info|Comparing Partitions]] - a site developed in the lab for comparing classification schemes\\

[[http://goeburst.phyloviz.net/|goeBURST]] - a globally optimized implementation of the eBURST algorithm for the analysis of MLST data developed in the lab in collaboration with INESC.

===== Contacts =====

**Email**: 
  * ramirez_at_fm.ul.pt (replace _at_ by @)\\

**Telephone**: 
  * +351217999458

===== Publications =====

[[http://orcid.org/0000-0002-4084-6233|{{:people:orcid-icon.png}}]][[http://www.scopus.com/inward/authorDetails.url?authorID=7201568476&partnerID=MN8TOARS|{{:people:scopus.ico}}]][[http://www.researcherid.com/rid/B-4993-2008|{{:people:researcherid.ico}}]][[http://scholar.google.com/citations?user=EWHFzOAAAAAJ&hl=en|{{:people:googlescholar.jpg?100}}]]
[[https://www.ncbi.nlm.nih.gov/pubmed?term=ramirez+m+AND+(de+lencastre+OR+tomasz+a+OR+melo-cristino+OR+carrico+ja+OR+carri%C3%A7o+ja+OR+pinto+fr+OR+aguiar+s+OR+frias+mj+OR+margarit+i)|{{:people:pubmedimage1.jpg?100|}}]]

**Publications after 2003:**

See the [[:publications|UMMI publications]].

**Publications before 2003:**

**J. Melo-Cristino, J., __Ramirez, M.__, N. Serrano, T. Hänscheid and the Portuguese Surveillance Group for the Study of Respiratory Pathogens**. 2002. Macrolide resistance in //Streptococcus pneumoniae// isolated from patients with community-acquired lower respiratory tract infections in Portugal: Results of a 3-year (1999 – 2001) multicenter surveillance study. Microb. Drug Resist. 9: 73-80. [[http://www.ncbi.nlm.nih.gov/pubmed/12705685|(PMID: 12705685)]]

**Alou, L., __Ramirez, M.__, García-Rey, C., Prieto, J. and H. de Lencastre**. 2001. //Streptococcus pneumoniae// isolates with reduced susceptibility to ciprofloxacin in Spain: clonal diversity and appearance of ciprofloxacin resistant epidemic clones. Antimicrob. Agents Chemother. 45:2955-7. [[http://www.ncbi.nlm.nih.gov/pubmed/11557501|(PMID: 11557501)]]

**__Ramirez, M.__, and A. Tomasz**. 1999. Acquisition of new capsular genes among clinical isolates of antibiotic- resistant //Streptococcus pneumoniae//. Microb. Drug Resist. 5:241-6. [[http://www.ncbi.nlm.nih.gov/pubmed/10647080|(PMID: 10647080)]]

**Severina, E., __M. Ramirez__, and A. Tomasz**. 1999. Prophage carriage as a molecular epidemiological marker in //Streptococcus pneumoniae//. J. Clin. Microbiol. 37:3308-15. [[http://www.ncbi.nlm.nih.gov/pubmed/10488197|(PMID: 10488197)]]

**__Ramirez, M.__, E. Severina, and A. Tomasz**. 1999. A high incidence of prophage carriage among natural isolates of //Streptococcus pneumoniae//. J. Bacteriol. 181:3618-25. [[http://www.ncbi.nlm.nih.gov/pubmed/10368133|(PMID: 10368133)]]

**__Ramirez, M.__ and A. Tomasz**. 1998. Molecular characterization of the complete 23F capsular polysaccharide locus of //Streptococcus pneumoniae//. J. Bacteriol. 180:5273-8. [[http://www.ncbi.nlm.nih.gov/pubmed/9748469|(PMID: 9748469)]]

**Marchese, A., __M. Ramirez__, G. C. Schito, Tomasz, A.**. 1998. Molecular epidemiology of penicillin-resistant //Streptococcus pneumoniae// isolates recovered in Italy from 1993 to 1996. J. Clin. Microbiol. 36:2944-9. [[http://www.ncbi.nlm.nih.gov/pubmed/9738048|(PMID: 9738048)]]

**Nesin, M., __Ramirez, M.__, Tomasz, A.** 1998. Capsular transformation of a multidrug resistant //Streptococcus pneumoniae// in vivo. J. Infect. Diseases, 177, 707-703. [[http://www.ncbi.nlm.nih.gov/pubmed/9498451|(PMID: 9498451)]]

**__Ramirez, M.__, Tomasz, A., Morrison, D.** 1996. Ubiquitous distribution of the competence related genes //comA// and //comC// among isolates of //Streptococcus pneumoniae//. Microbial Drug Resistance, 3, 39-52. [[http://www.ncbi.nlm.nih.gov/pubmed/9109095|(PMID: 9109095)]]

**Santos Sanches, I., __Ramirez, M.__, Troni, H., Abecassis, M., Padua, M., Tomasz, A., De Lencastre, H.** 1995. Evidence for the geographic spread of a methicillin-resistant //Staphylococcus aureus// clone between Portugal and Spain. J. Clin. Microbiol., 3, 1243-46. [[http://www.ncbi.nlm.nih.gov/pubmed/7615735|(PMID: 7615735)]]