Publications

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Peer-reviewed publications

Cohanim AB, Amsalem E, Saad R, Shoemaker D, Privman E. 2018. Evolution of olfactory functions on the fire ant social chromosome. Gen Biol Evol 10: 2947-2960.

Saad R, Cohanim AB, Kosloff M, Privman E. 2018. Neofunctionalization in ligand binding sites of ant olfactory receptors. Gen Biol Evol 10: 2490-2500.

Privman E, Cohen P, Cohanim AB, Riba-Grognuz O, Shoemaker D, Keller L. 2018. Positive selection on sociobiological traits in invasive fire ants. Mol Ecol 15: 3116-3130.

LeBoeuf AC, Waridel P, Brent CS, Goncalves AN, Menin L, Ortiz D, Riba-Grognuz O, Koto A, Soares ZG, Privman E, Miska EA, Benton R, Keller L. 2016. Oral transfer of chemical cues, growth proteins and hormones in social insects. eLIFE 5: E20375.

Lucas ER, Privman E, Keller L. 2016. Higher expression of somatic repair genes in long-lived ant queens than workers. Aging 8: 1940-1951.

Roux J, Privman E, Moretti S, Daub JT, Robinson-Rechavi M, Keller L. 2014. Patterns of positive selection in seven ant genomes. Mol Biol Evol 31: 1661-1685.

Privman E, Wurm Y, Keller L, 2013. Duplication and concerted evolution in a master sex determiner under balancing selection. Proc R Soc B 280: 20122968.

Simola DF, Wissler L, Donahue G, Waterhouse RM, et al. 2013. Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality. Genome Res 23: 1235-1247.

Privman E*, Penn O*, and Pupko T. 2012. Improving the performance of positive selection Inference by filtering unreliable alignment regions. Mol Biol Evol 29: 1-5.

Ryvkin A, Ashkenazy H, Smelyanski L, Kaplan G, Penn O, Weiss-Ottolenghi Y, Privman E, Ngam PB, Woodward JE, May GD, Bell C, Pupko T, Gershoni JM. 2012. Deep panning: steps towards probing the IgOme. PLoS One 7: e41469.

Barzel A, Naor A, Privman E, Kupiec M, Gophna U. 2011. Homing endonucleases residing within inteins: evolutionary puzzles awaiting genetic solutions. Biochem Soc Trans 39: 169-73.

Barzel A*, Privman E*, Peeri M, Naor A, Shachar E, Burstein D, Lazary R, Gophna U, Pupko T, and Kupiec M 2011. Native homing endonucleases can target conserved genes in humans and in animal models. Nuc Acid Res 39: 6646-6659.

      The HomeBase web server: a searchable collection of homing endonucleases for gene targeting

Penn O*, Privman E*, Ashkenazy H, Landan G, Graur D, and Pupko T 2010. GUIDANCE: a web server for assessing alignment confidence scores. Nuc Acid Res 38: W23-W28.
      The GUIDANCE web server: estimation of confidence scores for individual alignment positions

Penn O*, Privman E*, Landan G, Graur D, and Pupko T. 2010. An alignment confidence score capturing robustness to guide-tree uncertainty. Mol Biol Evol 27: 1759-1767.

Ninio M*, Privman E*, Pupko T, and Friedman N. 2007. Phylogeny reconstruction: increasing the accuracy of pairwise distance estimation using Bayesian inference of evolutionary rates. Bioinformatics 23: e136-e141.
      Available as part of the SEMPHY package

Stern A, Privman E, Rasis M, Lavi S, Pupko T. 2007. Evolution of the metazoan protein phosphatase 2C superfamily. J Mol Evol 64: 61-70.

 

Book chapters

Privman E. 2014. Bioinformatic identification of homing endonucleases and their target sites. In Homing Endonucleases (ed Edgell, D)Methods in Molecular Biology 1123: Ch. 2, 27-35.

 

Preprints (not peer-reviewed yet)

Boeckmann B., Dylus D., Moretti S., Altenhoff A., Train C.M., Kriventseva E., Bougueleret L., Xenarios I., Privman E., Dessimoz C. 2017. Taxon sampling unequally affects individual nodes in a phylogenetic tree: consequences for model gene tree construction in SwissTree. bioRxiv 181966.

 

Theses

M.Sc. Thesis: Yahav T. 2017. Haploid or diploid DNA? A comparative analysis of methods for de novo assembly of hymenopteran genomes.University of Haifa.

M.Sc. Thesis: Saad R. 2016. Evolution of olfactory receptors in ants and adaptations for social communication.University of Haifa.

Ph.D. Thesis: Privman E. 2010. Hybrid methods inspired by the mutual dependency of sequence alignment and phylogeny reconstruction. Tel Aviv University.

 

Patents

Barzel A, Privman E, Michael P, Pupko T, Kupeic M. 2009. Homing endonuclease genes and their targets. Patent application no. US 2011/0064717 A1.

Barzel A., Privman E., Burstein D., Gophna U., Pupko T., Kupiec M. 2009. Method for searching for homing endonucleases, their genes and their targets. Patent application no. US 2010/0317724 A1.

Akiva P., Dlber A., Pollock S., Levine Z., Nemzer S., Grebinskiy V., Meloon B., Olson A., Rosenberg A., Haviv A., Zevin S., Zekhari T., Shaged Z., Olshansky M., Farkash A., Privman E., Novik A., Keren N., Cojocaru G., Cohen Y., Shemesh R., Sella-Tavor O., Mintz L., Xie H., Dahary D., Levanon E., Freilich S., Beck N., Zhu W., Wasserman A., Chermesh C., Azar I., Sorek R., Bernstein J.  2006.  Novel calcium channel variants and methods of use thereof. Patent application no. US 2006/0147946 A1.

Diber A., Pollock S., Levine Z., Nemzer S., Grebinskiy V., Meloon B., Olson A., Rosenberg A., Haviv A., Zevin S., Zekharia T., Shaked Z., Olshansky M., Farkash A., Privman E., Novik A., Keren N., Cojocaru G., Akiva P., Cohen Y., Shemesh R., Sella-Tavor O., Mintz L., Xie H., Dahary D., Levanon E., Freilich S., Beck N., Zhu W., Wasserman A., Chermesh C., Azar I., Sorek R., Bernstein J.  2006.  Methods and systems for annotating biomolecular sequences. Patent application no. US 2006/0068405 A1.

 

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