Bioinformatics: LSCF Publications

  1. 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).
  2. 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.
  3. 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).
  4. 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.
  5. 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.
  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. 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 , .
  8. 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 , .
  9. 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 , .
  10. 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).
  11. 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.
  12. Shaler T. S., Fromm A., Schatz D., Ben-Dor S., Feldmesser E. & Vardi A. (2025). Mapping the transcriptional landscape of algal resistance to viral infection reveals a core expression program.  New Phytologist. 2025 Aug 27 , 248 (3):1368-1384.
  13. 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).
  14. 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).
  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. 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 , .
  17. 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).
  18. Lim L. Q. J., Adler L., Hajaj E., Soria L. R., Perry R. B. T., Darzi N., Brody R., Furth N., Lichtenstein M., Bab-Dinitz E., Porat Z., Melman T., Brandis A., Aylon Y., Ben-Dor S., Orr I., Pri-Or A., Seger R., Shaul Y., Ruppin E., Oren M., Perez M., Meier J., Brunetti-Pierri N., Shema E., Ulitsky I., Erez A., Malitsky S. & Itkin M. (2024). ASS1 metabolically contributes to the nuclear and cytosolic p53-mediated DNA damage response.  Nature metabolism. 2024 Jul , 6 (7):1294-1309.
  19. Boura-Halfon S., Haffner-Krausz R., Ben-Dor S., Kim J. S. & Jung S. (2024). Tackling Tissue Macrophage Heterogeneity by SplitCre Transgenesis.  . 2024, :481-503.
  20. Algranati D., Oren R., Dassa B., Fellus-Alyagor L., Plotnikov A., Barr H., Harmelin A., London N., Ron G., Furth N. & Shema E. (2024). Dual targeting of histone deacetylases and myc as potential treatment strategy for h3- k27m pediatric gliomas.  eLife. 2024, 13 .