Bioinformatics: LSCF Publications

  1. 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 , 35 (10):2240-2255.e6.
  2. 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.
  3. 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).
  4. 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).
  5. 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).
  6. Marom S., Lifshits Dayan I., Narasimha Kadali V., Giurgiu-Kraljič M., Koifman G., Hakeny K., Chaurasia M., Benamozig O., Nevo R., Azuri I., Ryvkin J., Rotkopf R., Stelzer G., Oniashvili N., Mardoukh J., Pollock S., Iremadze N., Shipony Z., Kupervaser M., Wigoda N., Leshkowitz D., Elazar Z., Berko E., Henssen A. G. & Shoshani O. (2025). Aberrant inheritance of extrachromosomal DNA amplifications promotes cancer evolution.  BioRxiv. 2025 Sept 21 , .
  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 Feb 17 , 44 (4):1007-1038.
  8. Aylon Y., Furth N., Pirona A. C., Lavie A., Fedorova O., Hassin O., Padrão N., Steinmetz M., Sarusi-Potuguez A., Fellus-Alyagor L., Shimoni I., Dassa B., Zwart W., Shema E. & Oren M. (2025). p53 regulates the expression of histone modifiers to restrict stemness and maintain differentiated luminal identity in breast cancer.  Proceedings of the National Academy of Sciences - PNAS. 2025 Nov 4 , 122 (44).
  9. Kotli P., Morgenstern D., Ben-Dor S., Kolska Horwitz L. & Boaretto E. (2025). Sex Identification and Species Confirmation in Modern and Archeological Caprine Enamel.  Journal of Proteome Research. 2025 Sept 5 , 24 (9):4403-4416.
  10. Gelman S., Rosenhek-Goldian I., Kampf N., Patocka M., Rios M., Penedo M., Fantner G., Beker A., Cohen S. R. & Azuri I. (2025). Deep learning for enhancement of low-resolution and noisy scanning probe microscopy images.  Beilstein Journal of Nanotechnology. 2025 Jul 16 , 16 :1129-1140.
  11. Marom S., Lifshits Dayan I., Narasimha Kadali V., Giurgiu-Kraljič M., Koifman G., Hakeny K., Chaurasia M., Benamozig O., Nevo R., Azuri I., Ryvkin J., Rotkopf R., Stelzer G., Oniashvili N., Mardoukh J., Pollock S., Iremadze N., Shipony Z., Kupervaser M., Wigoda N., Leshkowitz D., Elazar Z., Berko E., Henssen A. G. & Shoshani O. (2025). Aberrant inheritance of extrachromosomal DNA amplifications promotes cancer evolution.  BioRxiv. 2025 Sept 21 , .
  12. Marom S., Lifshits Dayan I., Narasimha Kadali V., Giurgiu-Kraljič M., Koifman G., Hakeny K., Chaurasia M., Benamozig O., Nevo R., Azuri I., Ryvkin J., Rotkopf R., Stelzer G., Oniashvili N., Mardoukh J., Pollock S., Iremadze N., Shipony Z., Kupervaser M., Wigoda N., Leshkowitz D., Elazar Z., Berko E., Henssen A. G. & Shoshani O. (2025). Aberrant inheritance of extrachromosomal DNA amplifications promotes cancer evolution.  BioRxiv. 2025 Sept 21 , .
  13. Marom S., Lifshits Dayan I., Narasimha Kadali V., Giurgiu-Kraljič M., Koifman G., Hakeny K., Chaurasia M., Benamozig O., Nevo R., Azuri I., Ryvkin J., Rotkopf R., Stelzer G., Oniashvili N., Mardoukh J., Pollock S., Iremadze N., Shipony Z., Kupervaser M., Wigoda N., Leshkowitz D., Elazar Z., Berko E., Henssen A. G. & Shoshani O. (2025). Aberrant inheritance of extrachromosomal DNA amplifications promotes cancer evolution.  BioRxiv. 2025 Sept 21 , .
  14. Eyal Z., Deis R., Gorelick-Ashkenazi A., Barzilay Y., Broder Y., Kellum A. P., Varsano N., Hartstein M., Sorrentino A., Rotkopf R., Kaplan-Ashiri I., Rechav K., Metzler R., Houben L., Kronik L., Rez P. & Gur D. (2025). pH variations enable guanine crystal formation within iridosomes.  Nature Chemical Biology. 2025 Sept 2 , .
  15. Marom S., Lifshits Dayan I., Narasimha Kadali V., Giurgiu-Kraljič M., Koifman G., Hakeny K., Chaurasia M., Benamozig O., Nevo R., Azuri I., Ryvkin J., Rotkopf R., Stelzer G., Oniashvili N., Mardoukh J., Pollock S., Iremadze N., Shipony Z., Kupervaser M., Wigoda N., Leshkowitz D., Elazar Z., Berko E., Henssen A. G. & Shoshani O. (2025). Aberrant inheritance of extrachromosomal DNA amplifications promotes cancer evolution.  BioRxiv. 2025 Sept 21 , .
  16. 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).
  17. 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).
  18. 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).
  19. de Haan D., Ramos N. H., Meng Y. F., Rotkopf R., Addadi Y., Rosenhek-Goldian I. & Gal A. (2024). Decoupling cell size homeostasis in diatoms from the geometrical constraints of the silica cell wall.  New Phytologist. 2024 Jul , 243 (1):258-270.
  20. Goldsmith M., Avram L., Brandis A., Mehlman T., Ben-Dor S., Peleg Y., Ben-Zeev E., Barbole R. S. & Reich Z. (2024). LsBOS utilizes oxalyl-CoA produced by LsAAE3 to synthesize β-ODAP in grass pea.  Nature Communications. 2024 Aug 8 , 15 .