Bioinformatics: LSCF Publications

  1. Grinberg I., Yin G., Borovok I., Miller M., Yeoman C., Dassa B., Yu Z., Mizrahi I., Flint H., Bayer E., White B. & Lamed R. (2015). Functional phylotyping approach for assessing intraspecific diversity of Ruminococcus albus within the rumen microbiome.  FEMS Microbiology Letters. 2015 Feb 9 , 362 (3):1-10.
  2. Harari D., Orr I., Rotkopf R., Baranzini S. & Schreiber G. (2015). A robust type I interferon gene signature fromblood RNA defines quantitative but not qualitative differences between three major IFNβ drugs in the treatment of multiple sclerosis.  Human Molecular Genetics. 2015 Jun 1 , 24 (11):3192-3205.
  3. Rozen S., Fuzesi-Levi M. G., Ben-Nissan G., Mizrachi L., Gabashvili A., Levin Y., Ben-Dor S., Eisenstein M. & Sharon M. (2015). CSNAP Is a Stoichiometric Subunit of the COP9 Signalosome.  Cell Reports. 2015 Oct 20 , 13 (3):585-598.
  4. Ben David D. Y., Dassa B., Borovok I., Lamed R., Koropatkin N. M., Martens E. C., White B. A., Bernalier-Donadille A., Duncan S. H., Flint H. J., Bayer E. & Morais S. (2015). Ruminococcal cellulosome systems from rumen to human.  Environmental Microbiology. 2015 Sept , 17 (9):3407-3426.
  5. Azuri I., Meirzadeh E., Ehre D., Cohen S., Rappe A. M., Lahav M., Lubomirsky I. & Kronik L. (2015). Unusually Large Young's Moduli of Amino Acid Molecular Crystals.  Angewandte Chemie (International ed. in English). 2015 Nov 9 , 54 (46):13566-13570.
  6. Ze X., Ben David D. Y., Laverde-Gomez J. A., Dassa B., Sheridan P. O., Duncan S. H., Louis P., Henrissat B., Juge N., Koropatkin N. M., Bayer E. & Flint H. J. (2015). Unique organization of extracellular amylases into amylosomes in the resistant starch-utilizing human colonic firmicutes bacterium ruminococcus bromii.  mBio. 2015 Sept 29 , 6 (5).
  7. Dassa B., Utturkar S., Hurt R. A., Klingeman D. M., Keller M., Xu J., Harish Kumar Reddy Y., Borovok I., Grinberg I. R., Lamed R., Zhivin O., Bayer E. A. & Brown S. D. (2015). Near-complete genome sequence of the cellulolytic bacterium Bacteroides (Pseudobacteroides) cellulosolvens ATCC 35603.  Genome Announcements. 2015 Sept 24 , 3 (5).
  8. Belinky F., Nativ N., Stelzer G., Zimmerman S., Stein T. I., Safran M. & Lancet D. (2015). PathCards: Multi-source consolidation of human biological pathways.  Database : the journal of biological databases and curation. 2015, 2015 .
  9. Ram D., Leshkowitz D., Gonzalez D., Forer R., Levy I., Chowers M., Lorber M., Hindiyeh M., Mendelson E. & Mor O. (2015). Evaluation of GS Junior and MiSeq next-generation sequencing technologies as an alternative to Trugene population sequencing in the clinical HIV laboratory.  Journal of Virological Methods. 2015 Feb , 212 :12-16.
  10. Dekel Y., Machluf Y., Ben-Dor S., Yifa O., Stoler A., Ben-Shlomo I. & Bercovich D. (2015). Dispersal of an ancient retroposon in the TP53 promoter of Bovidae: Phylogeny, novel mechanisms, and potential implications for cow milk persistency.  BMC Genomics. 2015 Feb 5 , 16 (1).
  11. Alcolombri U., Ben-Dor S., Feldmesser E., Levin Y., Tawfik D. & Vardi A. (2015). Identification of the algal dimethyl sulfide-releasing enzyme: A missing link in the marine sulfur cycle.  Science. 2015 Jun 26 , 348 (6242):1466-1469.
  12. Arafeh R., Qutob N., Emmanuel R., Keren-Paz A., Madore J., Elkahloun A., Wilmott J. S., Gartner J. J., Di Pizio A., Winograd-Katz S., Sindiri S., Rotkopf R., Dutton-Regester K., Johansson P., Pritchard A. L., Waddell N., Hill V. K., Lin J. C., Hevroni Y., Rosenberg S. A., Khan J., Ben-Dor S., Niv M. Y., Ulitsky I., Mann G. J., Scolyer R. A., Hayward N. K. & Samuels Y. (2015). Recurrent inactivating RASA2 mutations in melanoma.  Nature Genetics. 2015 Dec , 47 (12):1408-1410.
  13. Arafeh R., Qutob N., Emmanuel R., Keren-Paz A., Madore J., Elkahloun A., Wilmott J. S., Gartner J. J., Di Pizio A., Winograd-Katz S., Sindiri S., Rotkopf R., Dutton-Regester K., Johansson P., Pritchard A. L., Waddell N., Hill V. K., Lin J. C., Hevroni Y., Rosenberg S. A., Khan J., Ben-Dor S., Niv M. Y., Ulitsky I., Mann G. J., Scolyer R. A., Hayward N. K. & Samuels Y. (2015). Recurrent inactivating RASA2 mutations in melanoma.  Nature Genetics. 2015 Dec , 47 (12):1408-1410.
  14. Nicenboim J., Malkinson G., Lupo T., Asaf L., Sela Y., Mayseless O., Gibbs-Bar L., Senderovich N., Hashimshony T., Shin M. S., Jerafi-Vider A., Avraham-Davidi I., Krupalnik V., Hofi R., Almog G., Astin J. W., Golani O., Ben-Dor S., Crosier P. S., Herzog W., Lawson N. D., Hanna J. H., Yanai I. & Yaniv K. (2015). Lymphatic vessels arise from specialized angioblasts within a venous niche.  Nature. 2015 Jun 4 , 522 (7554):56-61.
  15. Fattal I., Shental N., Ben-Dor S., Molad Y., Gabrielli A., Pokroy-Shapira E., Oren S., Livneh A., Langevitz P., Zandman-Goddard G., Sarig O., Margalit R., Gafter U., Domany E. & Cohen I. R. (2015). Guanine polynucleotides are self-antigens for human natural autoantibodies and are significantly reduced in the human genome.  Immunology. 2015 Nov , 146 (3):401-410.
  16. Minis A., Dahary D., Manor O., Leshkowitz D., Pilpel Y. & Yaron A. (2014). Subcellular transcriptomics-Dissection of the mRNA composition in the axonal compartment of sensory neurons.  Developmental Neurobiology. 2014 Mar , 74 (3):365-381.
  17. Azuri I., Adler-Abramovich L., Gazit E., Hod O. & Kronik L. (2014). Why are diphenylalanine-based peptide nanostructures so rigid? Insights from first principles calculations.  Journal of the American Chemical Society. 2014 Jan 22 , 136 (3):963-969.
  18. Cohen S., Itkin M., Yeselson Y., Tzuri G., Portnoy V., Harel-Baja R., Lev S., Sa'ar U., Davidovitz-Rikanati R., Baranes N., Bar E., Wolf D., Petreikov M., Shen S., Ben-Dor S., Rogachev I., Aharoni A., Ast T., Schuldiner M., Belausov E., Eshed R., Ophir R., Sherman A., Frei B., Neuhaus H. E., Xu Y., Fei Z., Giovannoni J., Lewinsohn E., Tadmor Y., Paris H. S., Katzir N., Burger Y. & Schaffer A. A. (2014). The PH gene determines fruit acidity and contributes to the evolution of sweet melons.  Nature Communications. 2014 Jun 5 , 5 .
  19. Dassa B., Borovok I., Ruimy-Israeli V., Lamed R., Flint H. J., Duncan S. H., Henrissat B., Coutinho P., Morrison M., Mosoni P., Yeoman C. J., White B. A. & Bayer E. (2014). Rumen cellulosomics: Divergent fiber-degrading strategies revealed by comparative genome-wide analysis of six ruminococcal strains.  PLoS ONE. 2014 Jul 3 , 9 (7).
  20. Feldmesser E., Rosenwasser S., Vardi A. & Ben-Dor S. (2014). Improving transcriptome construction in non-model organisms: Integrating manual and automated gene definition in Emiliania huxleyi.  BMC Genomics. 2014 Feb 22 , 15 (1).