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Faculty Detail Faculty Entry   
Name JONAS S ALMEIDA  
Campus Address WP P220 Zip 7331
Phone 205-975-3286
E-mail jalmeida@uab.edu" id="FacultyDetail1EmailAddress"><a href="mailto:jalmeida@uab.edu">jalmeida@uab.edu</a>
URL http://jonasalmeida.info
 
 

Department Affiliations(s)
Appointment Type Department Division Rank
Center  Arthritis & Musculoskeletal Diseases Center  Arthritis & Musculoskeletal Diseases Center Professor
Center  Comprehensive Cancer Center  Comprehensive Cancer Center Professor
Center  General Clinical Research Center  Ctr for Clinical & Translational Sci Professor
Primary  Pathology   Pathology Informatics Professor

Biographical Sketch 
See Bio, with list of publications, at http://jonasalmeida.info

Society Memberships
Organization Name Position Held Org Link
American Medical Informatics Association    https://www.amia.org/ 
International Society for Computational Biology    http://www.iscb.org/ 
 

Research/Clinical Interest
Title
Computational Infrastructure for Integrative Bioinformatics
Description
My research is focused on the computational infrastructure for integrative bioinformatics. Specifically, it seeks to articulate the computational statistics aspects of data analysis with the data representation and management of its acquisition. This domain of enquiry seeks to understand and advance the emergence of unified computational environments that make optimal use of the scalability of cloud computing and the generality of semantic web representations. The practical application of this research is to enable the personalization of medicine by providing its computational vehicle.

Postdoc Positions Available
Date Posted Position Title
No records
 

Selected Publications 
Publication PUBMEDID
Almeida JS, E Iriabho, VL Gorrepati, S Wilkinson, DE Robbins, A Grüneberg, JR Hackney (2012) ImageJS: personalized, participated, pervasive and reproducible image bioinformatics in the web browser. J Pathology Informatics 3:25  22934238 
Almeida JS, A Grüneberg, W Maass, S Vinga (2012) Fractal MapReduce decomposition of sequence alignment. Algorithms for Molecular Biology 7:12  22551205 
Vinga S, AM Carvalho, AP Francisco, LMS Russo, JS Almeida (2012) Pattern matching through Chaos Game Representation: bridging numerical and discrete data structures for biological sequence analysis. Algorithms for Molecular Biology 7:10  22551152 
Neely BA, JL Soper, DJ Greig, KP Carlin, EG Favre, FMD Gulland, JS Almeida and MJanech (2012) Serum profiling by MALDI-TOF mass spectrometry as a diagnostic tool for domoic acid toxicosis in California sea lions. Proteome Science 2012, 10:18  22429742 
Ravenell RL, Kamen DL, Spence JD, Hollis BW, Fleury TJ, Janech MG, Almeida JS, Shaftman SR, Oates JC (2012) Premature Atherosclerosis Is Associated With Hypovitaminosis D and Angiotensin-Coverting Enzyme Inhibitor Non-use in Lupus Patients. Am J Med Sci. 2012 Jan 4.  22222338 
Deus HF, MC Correa, R Stanislaus , M Miragaia , W Maass , H de Lencastre, R Fox, JS Almeida (2011) S3QL: A distributed domain specific language for controlled semantic integration of life sciences data. BMC Bioinformatics 2011, 12:285.  21756325 
Correa MC, HF Deus, AT Vasconcelos, Y Hayashi, JA Ajani, SV Patnana, JS Almeida (2010) AGUIA: autonomous graphical user interface assembly for clinical tirals semantic data services. BMC Medical Informatics and Decision Making, (10)35.   20977768 
Almeida JS (2010) Computational ecosystems for data-driven medical genomics. Genome Medicine 2010, 2:67.   20854645 
Deus HF, DF Veiga, PR Freire, JN Weinstein, GB Mills, JS Almeida (2010) Exposing The Cancer Genome Atlas as a SPARQL endpoint. Journal Biomedical Informatics.   20851208 
Robinson CJ, Hill EG, Alanis MC, Chang EY, Johnson DD, Almeida JS (2010) Examining the Effect of Maternal Obesity on Outcome of Labor Induction in Patients with Preeclampsia. Hypertens Pregnancy. 2010 Sep 6.   20818957 
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Keywords
Informatics, computational statistics

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