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Refereed publications in scientific journals:

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  1. Levy AA, Fridlender M, Rubin E, Sitrit Y. (1996) "Binding of Nicotiana nuclear proteins to the subterminal regions of the Ac transposable element" Mol Gen Genet. 251(4):436-441. IF: 2.453 JR: 81/156 in genetics & heredity; Cited: 7

  2. Rubin E, Levy AA. (1996) "A mathematical model and a computerized simulation of PCR using complex templates" Nucleic Acids Res. 24(18):3538-3545. IF: 7.552 JR: 30/286 in biochemistry & molecular biology; Cited: 13

  3. Rubin E, Levy AA. (1997) "Abortive gap repair: underlying mechanism for Ds element formation." Mol Cell Biol.17(11):6294-6302. IF: 6.188 JR: 41/286 in biochemistry & molecular biology; Cited: 66

  4. Rubin E, Lithwick G, Levy AA. (2001) "Structure and evolution of the hAT transposon superfamily" Genetics 158(3):949-957. IF: 4.289 JR: 38/156 in genetics & heredity; Cited: 71

  5. Ben-Dor S, Esterman N, Rubin E, Sharon N. (2004) “Biases and complex patterns in the residues flanking protein N-glycosylation sites.” Glycobiology 14(2):95-101 IF: 3.791 JR: 98/286 in biochemistry & molecular biology; Cited: 59

  6. Ner-Gaon H, Halachmi R, Savaldi-Goldstein S, Rubin E, Ophir R, Fluhr R. (2004) “Intron retention is a major phenomenon in alternative splicing in Arabidopsis.” Plant J. 39(6):877-885 IF: 6.948 JR: 6/187 in plant sciences; Cited: 91

  7. Shachak A, Ophir R and Rubin E. (2005) “Applying instructional design theories to bioinformatics education in microarray analysis and primer design workshops.”  Cell Biology Education 4(3): 199-206 IF: n/a Cited: 11§

  8. Rubin, E. (2006) "Circumventing the cut-off for enrichment analysis." Brief. Bioinform. 7:202-203.

  9. Broderick, G. and Rubin, E. (2006) "The Realistic Modeling of Biological Systems: A Workshop Synopsis" ComPlexUs 3(4): 217-230

  10. Rubin, E. (2006) "List mania: interpreting microarray results with the L2L server" Brief. Bioinform. 7(1): 121-122

  11. Ner-Gaon, H., Leviatan N., Rubin E. and Fluhr, R. (2007) "Comparative cross-species alternative splicing in plants" Plant Physiology 144:1632-1641

  12. Zhidkov, I., Livneh, E. A., Rubin, E. and Mishmar, D. (2009)  "mtDNA mutation pattern in tumors and human evolution are shaped by similar selective constraints" Genome Research 19(4):576-580 (equal contribution with D. Mishmar)

  13. Geifman, N., Monsonego, A. and Rubin, E (2010) "The Neural/Immune Gene Ontology: Clipping the Gene Ontology for neurological and immunological systems" BMC Bioinformatics 11:458-72

  14. Snir, T. and Rubin, E. (2011) "Proteins length and their phenotypic potential" International International Journal of Biological and Life Sciences 7(1):25-29

  15. Rubin E, Gordon M, Sergienko R, Ragolsky M, Lunenfeld E, Sheiner E. (2011) "Ethnic differences in age-related changes of postpartum hemoglobin levels" Arch Gynecol Obstet 283(2):173-8

  16. Cohen , M., Yossef, R, Erez, T., Kugel, A., Welt, M., Karpasas, M.M., Bones, J., M. Rudd, P.M., Taieb, J., Boissin, H., Harats, D., Noy, K., Tekoah, Y., Lichtenstein, R.G., Rubin, E., and Porgador, A. (2011) "Serum Apolipoproteins C-I and C-III are Reduced in Stomach Cancer Patients: Results from MALDI-Based Peptidome and Immuno-Based Clinical Assays". PLOS One 18;6(1):e14540.

  17. Zhidkov, I., Cohen, R., Geifman, N., Mishmar, D. and Rubin, E. (2011a) "CHILD: a new tool for detecting low-abundance insertions and deletions in standard sequence traces" Nucleic Acid Res. 39(7):E47-U96

  18. Geifman, N. and Rubin, E. (2011) "Towards an Age-Phenome Knowledge-base". BMC Bioinformatics 12:229

  19. Zhidkov, I., Nagar, T., Mishmar, D. and Rubin, E. (2011b) "MitoBamAnnotator: A web-based tool for detecting and annotating heteroplasmy in human mitochondrial DNA sequences" Mitochondrion 11(6):924-8.

  20. Markovitz Gordon, M., Moser, A., and Rubin, E., (2012) "Unsupervised Analysis of Classical Biomedical Markers: Robustness and Medical Relevance of Patient Clustering Using Bioinformatics Tools". PLoS One. 7(3):e29578

  21. Blüher, M., Rudich, A., Klöting, N., Golan, R., Henkin, Y., Rubin, E., Schwarzfuchs, D., Gepner, Y., Stampfer, M.J., Fiedler, M., Thiery, J., Stumvoll, M. and Shai, I. (2012) "Two patterns of adipokine and other biomarker dynamics in a long term weight loss intervention". Diabetes Care 35(2):342-9     

  22. Zamir, L., Zaretzky, M., Fridman, Y., Ner-Gaon, H., Rubin, E. and Aharoni, A. (2012) "Tight co-evolution of PCNA-partner interaction networks in fungi leads to inter-species network incompatibility" Proc Natl Acad Sci USA. 109(7):E406-14

  23. Kolusheva1, S., Yossef, R., Kugel, A., Hanin-Avraham, N., Cohen, M., Rubin, E.  and Porgador, A. (2012) “A Novel “Reactomics” Approach for Cancer Diagnostics”. Sensors 12(5):5572-5585. IF: 1.8 JR: 14/61 in Instruments & Instrumentation.

  24. Kolusheva, S., Yossef, R., Kugel, A., Katz, M., Volinsky, R., Velt, M., Hadad, U., Drory, V., Kliger, M., Rubin, E., Porgador, A., Jelinek, R. (2012) “Array-based disease diagnostics using lipid/polydiacetylene vesicles encapsulated in a sol-gel matrix”. Analytical Chemistry, 84(14): 5925-5931.. IF: 5.9 JR: 3/71 in chemistry, analytical.

  25. Avital, G., Buchshtav, M., Zhidkov, I, Tuval, J., Dadon, S., Rubin, E., Glass, D., Spector, TD., Mishmar, D. (2012) "Mitochondrial DNA heteroplasmy in diabetes and normal adults: role of acquired and inherited mutational patterns in twins". Human Molecular Genetics 21(19): 4214-4224 IF: 7.6 JR: 13/158 in Genetics & Heredity.

  26. Geifman, N. and Rubin, E. (2013) "The age-phenome database". SpringerPlus 1:4. IF: n/a (new journal).

  27. Geifman, N., Cohen, R. and Rubin, E. (2013) “Redefining meaningful age groups in the context of disease”. AGE 35(6):2357-2366              

  28. Geifman, N. and Rubin, E.  (2013) "The Mouse Age Phenome Knowledgebase and disease-specific inter-species age mapping" PlosOne DOI: 10.1371/journal.pone.0081114

  29. Geifman, N., Haviv, I., Kuzrock, R. and Rubin, E (2014) " Promoting Precision Cancer Medicine through a Community-Driven Knowledgebase" J. Pers. Med 4:475-488

  30. Lazar et. Al. (2015) "A Simplified Interventional Mapping System (SIMS) for the Selection of Combinations of Targeted Treatments in Non-Small Cell Lung Cancer" Oncotarget 6(16):14139-14152.

  31. Rodon, J., Soria, J. C., Berger, R., Batist, G., Tsimberidou, A., Bresson, C., J.J. Lee, E. Rubin, A. Onn, R.L. Schilsky, W.H. Miller Jr, A.M. Eggermont, J. Mendelsohn, V. Lazar2 and Kurzrock, R. (2015). "Challenges in Initiating and Conducting Personalized Cancer Therapy Trials: Perspectives from WINTHER, a Worldwide Innovative Network (WIN) Consortium Trial" Annals of Oncology, mdv191.

  32. Telsch, O., Porgador, A., and Rubin E.  (2015) "Extracting tumor tissue immune status from expression profiles: Correlating renal cancer prognosis with tumor-associated immunome". Oncotarget 6(32):33191-205

  33. Porgador, A., Telsch, O. and Rubin, E.  (2015) "Extracting tumor tissue immune status from expression profiles: Correlating Prognosis with Tumor-Associated Immunome" (abstract). The official Journal of the International Cancer Microenvironment Society 8(S1):S42

  34. Shemesh, A., Brusilovsky, M., Hadad, U., Teltsh, O., Edri, A., Rubin E., Campbell K.S., Rosental, B. and Porgador, A. (In press) "Survival in acute myeloid leukemia is associated with NKp44 splice variants". Oncotarget

  35. Eyal, N., Last, M. and Rubin, E. (in press) "PCM-SABRE: A platform for benchmarking and comparing outcome prediction methods in precision cancer medicine" BMC Bioinformatics

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Authored books

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  1. Rubin, E. and Seckbach, J. (eds) (2004) "The new avenues in bioinformatics" Springer, London (281 pages).

 

Chapters in collective volumes

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  1. Fliss, A. Ragolsky, M. and Rubin, E. (2008) "Reverse Translational Bioinformatics: A Bioinformatics Assay Of Age, Gender And Clinical Biomarkers". In Proceedings of the AMIA summit on translational Bioinformatics, American Medical Informatics Association, Bethesda, MD (pp. 11-15)

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