Bioinformatics: LSCF Publications

  1. Mestre B., Zelnik I. D., Izrailov S., Dingjan T., Lvovsky G., Fidel L., Ben-Dor S. & Futerman A. H. (2025). An anomalous abundance of tryptophan residues in ceramide synthases based on analysis of all membrane proteins in the Swiss-Prot database.  Journal of Biological Chemistry. 2025 Jan , 301 (1).
  2. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  3. Shvefel S. C., Pai J. A., Cao Y., Pal L. R., Bartok O., Levy R., Zemanek M. J., Weller C., Herzog E., Yao W., Hiam-Galvez K. J., Cheng K., Yin Y., Du P. P., Raposo C. J., Gumpert N., Welti M., Martínez Gómez J. M., Sella F., Yakubovich E., Orr I., Ben-Dor S., Oren R., Fellus-Alyagor L., Golani O., Brenner O. J., Salame T. M., Zerbib M., Goliand I., Ranmar D., Savchenko I., Ketrarou N., Schäffer A. A., Dahan R., Levesque M. P., Ruppin E., Satpathy A. T. & Samuels Y. (2025). Temporal Genomic Analysis of Homogeneous Tumor Models Reveals Key Regulators of Immune Evasion in Melanoma.  Cancer Discovery. 2025 Mar 1 , 15 (3):553-577.
  4. Chourasia S., Petucci C., Shoffler C., Abbasian D., Wang H., Han X., Sivan E., Brandis A., Mehlman T., Malitsky S., Itkin M., Sharp A., Rotkopf R., Dassa B., Regev L., Zaltsman Y. & Gross A. (2025). MTCH2 controls energy demand and expenditure to fuel anabolism during adipogenesis.  EMBO Journal. 2025 Jan 3 , 44 (4):1007-1038.
  5. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  6. Weller C., Bartok O., McGinnis C. S., Palashati H., Chang T. G., Malko D., Shmueli M. D., Nagao A., Hayoun D., Murayama A., Sakaguchi Y., Poulis P., Khatib A., Erlanger Avigdor B., Gordon S., Cohen Shvefel S., Zemanek M. J., Nielsen M. M., Boura-Halfon S., Sagie S., Gumpert N., Yang W., Alexeev D., Kyriakidou P., Yao W., Zerbib M., Greenberg P., Benedek G., Litchfield K., Petrovich-Kopitman E., Nagler A., Oren R., Ben-Dor S., Levin Y., Pilpel Y., Rodnina M., Cox J., Merbl Y., Satpathy A. T., Carmi Y., Erhard F., Suzuki T., Buskirk A. R., Olweus J., Ruppin E., Schlosser A. & Samuels Y. (2025). Translation dysregulation in cancer as a source for targetable antigens.  Cancer Cell. 2025 Mar 27 , .
  7. Chourasia S., Petucci C., Shoffler C., Abbasian D., Wang H., Han X., Sivan E., Brandis A., Mehlman T., Malitsky S., Itkin M., Sharp A., Rotkopf R., Dassa B., Regev L., Zaltsman Y. & Gross A. (2025). MTCH2 controls energy demand and expenditure to fuel anabolism during adipogenesis.  EMBO Journal. 2025 Jan 3 , 44 (4):1007-1038.
  8. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  9. Mizrachi A., Sadeh M., Ben-Dor S., Dym O., Ku C., Feldmesser E., Zarfin A., Brunson J. K., Allen A. E., Jinkerson R. E., Schatz D. & Vardi A. (2025). Cathepsin X is a conserved cell death protein involved in algal response to environmental stress.  Current Biology. 2025 Apr 14 , .
  10. Furth N., Cohen N., Spitzer A., Salame T. M., Dassa B., Mehlman T., Brandis A., Moussaieff A., Friedmann-Morvinski D., Castro M. G., Fortin J., Suvà M. L., Tirosh I., Erez A., Ron G. & Shema E. (2025). Oncogenic IDH1mut drives robust loss of histone acetylation and increases chromatin heterogeneity.  Proceedings of the National Academy of Sciences - PNAS. 2025 Jan 7 , 122 (1).
  11. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  12. Shpitzen S., Rosen H., Ben-Zvi A., Meir K., Levin G., Gudgold A., Ben Dor S., Haffner R., Zwas D. R., Leibowitz D., Slaugenhaupt S. A., Banin E., Mizrachi R., Obolensky A., Levine R. A., Gilon D., Leitersdorf E., Tessler I., Reshef N. & Durst R. (2025). Characterization of LTBP2 mutation causing mitral valve prolapse.  European Heart Journal Open. 2025 Jan 1 , 5 (1).
  13. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  14. Leushkin Y., Morgenstern D., Ben-Dor S., Haffner-Krausz R., Zittlau K., Ben-Nissan G. & Sharon M. (2025). Molecular insights into the unique properties of the blood-circulating proteasome.  Journal of Extracellular Biology. 2025 Jan , 4 (1).
  15. Lindner J., Dassa B., Wigoda N., Stelzer G., Feldmesser E., Prilusky J. & Leshkowitz D. (2025). UTAP2: an enhanced user-friendly transcriptome and epigenome analysis pipeline.  BMC Bioinformatics. 2025 Mar 7 , 26 .
  16. Kiper E., Ben Hur D., Alfandari D., Camacho A. C., Wani N. A., Efrat G. D., Morandi M. I., Goldsmith M., Rotkopf R., Kamyshinsky R., Deshmukh A., Binte Zulkifli N. E., Asmari N., Penedo M., Fantner G., Porat Z., Azuri I., Rosenhek-Goldian I., Chitnis C. E., Shai Y. & Regev-Rudzki N. (2025). Antimicrobial peptides selectively target malaria parasites by a cholesterol-dependent mechanism.  Journal of Biological Chemistry. 2025 Apr , 301 (4).
  17. Alfandari D., Rosenhek-Goldian I., Kozela E., Nevo R., Senprún M. B., Moisieiev A., Sogauker N., Azuri I., Gelman S., Kiper E., Ben Hur D., Dharan R., Sorkin R., Porat Z., Morandi M. I. & Regev-Rudzki N. (2025). Host Immune Cell Membrane Deformability Governs the Uptake Route of Malaria-Derived Extracellular Vesicles.  ACS Nano. 2025 Mar 18 , 19 (10):9760-9778.
  18. Kiper E., Ben Hur D., Alfandari D., Camacho A. C., Wani N. A., Efrat G. D., Morandi M. I., Goldsmith M., Rotkopf R., Kamyshinsky R., Deshmukh A., Binte Zulkifli N. E., Asmari N., Penedo M., Fantner G., Porat Z., Azuri I., Rosenhek-Goldian I., Chitnis C. E., Shai Y. & Regev-Rudzki N. (2025). Antimicrobial peptides selectively target malaria parasites by a cholesterol-dependent mechanism.  Journal of Biological Chemistry. 2025 Apr , 301 (4).
  19. Sekeresova Kralova J., Donic C., Dassa B., Livyatan I., Jansen P. M., Ben-Dor S., Fidel L., Trzebanski S., Narunsky-Haziza L., Asraf O., Brenner O., Dafni H., Jona G., Boura-Halfon S., Stettner N., Segal E., Brunke S., Pilpel Y., Straussman R., Zeevi D., Bacher P., Hube B., Shlezinger N. & Jung S. (2024). Competitive fungal commensalism mitigates candidiasis pathology.  Journal of Experimental Medicine. 2024 May 6 , 221 (5).
  20. Yahalom-Ronen Y., Melamed S., Politi B., Erez N., Tamir H., Bar-On L., Ryvkin J., Leshkowitz D., Israeli O., Weiss S., Ben-Shmuel A., Barlev-Gross M., Cherry Mimran L., Achdout H., Paran N. & Israely T. (2024). Induction of Superior Systemic and Mucosal Protective Immunity to SARS-CoV-2 by Nasal Administration of a VSVΔGSpike Vaccine.  Vaccines. 2024 May , 12 (5).