Profession: Bioinformatician
Email:  fliessa@yahoo.com
Address: Aviel, Israel, Zip code 37835
Phone: 972-50-8880977  972-4-6388313

Professional profile

Computational skills
Category
Computational  tools
Data-mining
KNIME, Clementine & Weka
String matching & Sequence alignment
Sequence search & sequence alignment packages and internet servers
Molecular modeling by Molecular mechanics
Structural Bioinformatics packages and internet servers
Molecular computational geometry
Structural Bioinformatics packages and internet server

Scripting language
High-throughput computational analysis
R, Unix  shell, Perl & Ruby
Cluster analysis
R
Text  processing, mostly by utilizing regular expressions
Perl,  Unix shell & Ruby
macromolecule  3D-cartesian coordinate files analysis
R,  Matlab & Unix shell (especially awk)
Semi-automated text mining

Basic Statistical Analysis
R  & SPSS

Work experience

2015
Consultant: WizSoft Ltd. 3 Beit Hillel St. Tel-Aviv.
-Data mining of genomic data.
2013
Computational Genomics Scientist:
Evogene Ltd., Computational Genomics Department, 13 Gad Feinstein St. Rehovot.
- Information retrieval from the web including: public biological databases and tables & lists of various crops traits. Merging those tables & lists into a single table.
- Semi-automatic text mining of annotations in Genbank and Uniprot files mainly by using regular expressions.
- Updating and correction of the taxonomic data in Evogene.
2010
Bioinformatician: Dr. Shimon Meir and Dr. Sonia Philosoph-Hadas Lab., Department of Post-harvest Science of Fresh Produce, ARO, The Volcani Center, Bet-Dagan, with the help of Dr. Ron Ophir.
- Microarray computational analysis, mainly by Clustering.
2009
Bioinformatician: Dr. Nativ Dudai Lab., Medicinal and Aromatic Plants Unit, Newe Ya'ar Agricultural Research Center, Ramat Yishay.
- Correlation analysis between volatile compounds in spice plants.
- Curve fitting of accumulation of volatile compounds in leaves.
2006-2008
Post doctorate: Dr. Eitan Rubin Lab., Health Sciences Faculty, Ben-Gurion University.
- Data mining of medical data, mainly the study of the relationships between clinical biomarkers and age.
- Cluster analysis based on composition of volatile compounds for classification and characterization of aromatic plant,  A joint project with South Judea R&D Center and Newe Ya'ar Agricultural Research Center.
2003-2005
Post doctorate: Prof. Ron Unger Lab., Life Science Faculty, Bar-Ilan University.
- Classification of biological term in biomedical literature for a joint free text mining project with Dr. Ronen Feldman Lab.
- Computational prediction of the structure of human histone deacetylases and their binding to butyrate.
2002
Research assistant: Prof. Hanah Margalit Lab., Department of Molecular Genetics & Biotechnology, the Hebrew University of Jerusalem.
- Semi-automatic text mining of yeast protein-protein interaction sites.
1993-1994
Research assistant: Prof. Ephraim Katzir Lab., Weizmann Institute.
Computational prediction of heparin binding to fibroblast growth factors.
- Information retrieval of protein electrostatics computation.

Education

1996-2002
Ph.D. : Prof. Ron Unger Lab.,  Life Science Faculty, Bar-Ilan University.
Thesis: Swaps in Biological Macromolecules. 
Method: local Sequence alignment tools and analysis of domain database
1990-1992
M.Sc. : Prof. Amiram Goldblum Lab., School of Pharmacy, the Hebrew University of Jerusalem.
Thesis: The main factors in the dimerization of HIV-1 protease.
Method: Molecular mechanics calculations
1987-1988
Diploma of Librarian-Information specialist: School of Library & Archive, the Hebrew University of Jerusalem. 
1983-1985
B.Sc. : Faculty of Agriculture Rehovot, the Hebrew University of Jerusalem.

Award
The Hebrew University of Jerusalem Medical School prize for an outstanding M.Sc. research thesis.  

Publications
Fliess A, Ragolsky, M, Rubin E .
Reverse Translational Bioinformatics: A Bioinformatics Assay Of Age, Gender And Clinical Biomarkers.
Translational Bioinformatics Proceedings, San Francisco, CA, 10 to 12 March 2008: 11-15 [AMIA, Bethesda, MD, ISCB, La Jolla, CA, 2008]

Fliess A, Motro B, Unger R .
Swaps in protein sequences.
PROTEINS 48: 377-387 [2002]

Uliel S, Fliess A, Unger R .
Naturally occurring circular permutation in proteins.
PROTEIN ENGINEERING 14: 101-110 [2001]

Uliel S, Fliess A, Amir A, Unger R .
A simple algorithm for detecting circular permutation in proteins.
BIOINFORMATICS 15: 930-936 [1999]

Gorinstein S, Zemser M, Fliess A, Shnitman I, Paredes-Lopez O, Yamamoto K, Kobayashi S, Taniguchi H .
Computational analysis of the amino acid residue sequences of amaranth and some other proteins.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY 62: (10) 1845-1851 [1998]

Goldblum A, Rayan A, Fliess A, Glick M .
Extending crystallographic information with semiempirical quantum-mechanics and molecular mechanics - a case of aspartic proteinases.
JOURNAL OF CHEMICAL INFORMATION AND COMPUTER SCIENCES 33: (2) 270-274 [1993]

Rayan A, Fliess A, Kotler M, Chorev M, Goldblum A .
Theoretical models of aspartic proteases: active site properties, dimer stability and interactions with model inhibitors.
ADVANCE IN EXPERIMENTAL MEDICAL BIOLOGY 306: 555-558 [1991]

For recommendations please contact:
Dr. Eitan Rubin         Phone:972-8-647-9197 972-52-8897143        Email:erubin@bgu.ac.il
Sarah Pollock            Phone:972-544434049                    Email:sarah.pollock@evogene.com
Prof. Ron Unger        Phone: 972-3-5318124                     Email: ron@biocom1.ls.biu.ac.il
Prof. Amiram Goldblum  Phone:972-2-6758701 972-54-4653292 Email:amiram@vms.huji.ac.il