Bioinformatics: LSCF Publications

  1. Shemi A., Alcolombri U., Schatz D., Farstey V., Vincent F., Rotkopf R., Ben-Dor S., Frada M. J., Tawfik D. S. & Vardi A. (2021). Dimethyl sulfide mediates microbial predatorprey interactions between zooplankton and algae in the ocean.  Nature Microbiology. 2021 Nov , 6 (11):1357-1366.
  2. Kalaora S., Nagler A., Nejman D., Alon M., Barbolin C., Barnea E., Ketelaars S. L. C., Cheng K., Vervier K., Shental N., Bussi Y., Rotkopf R., Levy R., Benedek G., Trabish S., Dadosh T., Levin-Zaidman S., Geller L. T., Wang K., Greenberg P., Yagel G., Peri A., Fuks G., Bhardwaj N., Reuben A., Hermida L., Johnson S. B., Galloway-Peña J. R., Shropshire W. C., Bernatchez C., Haymaker C., Arora R., Roitman L., Eilam R., Weinberger A., Lotan-Pompan M., Lotem M., Levin Y., Lawley T. D., Adams D. J., Levesque M. P., Besser M. J., Schachter J., Golani O., Segal E., Ruppin E., Kvistborg P., Peterson S. N., Wargo J. A., Straussman R. & Samuels Y. (2021). Identification of bacteria-derived HLA-bound peptides in melanoma.  Nature (London). 2021 Apr 1 , 592 (7852):138-143.
  3. Maddalena M., Mallel G., Nataraj N. B., Shreberk-Shaked M., Hassin O., Mukherjee S., Arandkar S., Rotkopf R., Kapsack A., Lambiase G., Pellegrino B., Ben-Isaac E., Golani O., Addadi Y., Hajaj E., Eilam R., Straussman R., Yarden Y., Lotem M. & Oren M. (2021). TP53 missense mutations in PDAC are associated with enhanced fibrosis and an immunosuppressive microenvironment.  Proceedings of the National Academy of Sciences. 2021 Jun 4 , 118 (23).
  4. Feldmesser E., Ben-Dor S. & Vardi A. (2021). An Emiliania huxleyi pan-transcriptome reveals basal strain specificity in gene expression patterns.  Scientific Reports. 2021 Dec , 11 (1).
  5. Camargo S., Leshkowitz D., Dassa B., Mariscal V., Flores E., Stavans J. & Arbel-Goren R. (2021). Impaired cell-cell communication in the multicellular cyanobacterium Anabaena affects carbon uptake, photosynthesis, and the cell wall.  iScience. 2021 Jan 22 , 24 (1).
  6. Doron E., Koppel I., Abraham O., Rishal I., Smith T. P., Buchanan C. N., Sahoo P. K., Kadlec J., Oses-Prieto J. A., Kawaguchi R., Alber S., Zahavi E. E., Di Matteo P., Di Pizio A., Song D. A., Okladnikova N., Gordon D., Ben-Dor S., Haffner-Krausz R., Coppola G., Burlingame A. L., Jungwirth P., Twiss J. L. & Fainzilber M. (2021). The glycine arginine-rich domain of the RNA-binding protein nucleolin regulates its subcellular localization.  EMBO Journal. 2021 Oct 18 , 40 (20).
  7. Mevorach T., Taler M., Dar S., Lebow M., Sapir I. S., Rotkopf R., Apter A., Fennig S., Chen A., Weizman A. & Amitai M. (2021). The relationship between the plasma proinflammatory cytokine levels of depressed/anxious children and their parents.  Scientific Reports. 2021 Dec , 11 (1).
  8. Ofir-Birin Y., Ben Ami Pilo H., Camacho A. C., Rudik A., Rivkin A., Revach O., Nir N., Tamin T. B., Karam P. A., Kiper E., Peleg Y., Nevo R., Solomon A., Havkin-Solomon T., Rojas A., Rotkopf R., Porat Z., Avni D., Schwartz E., Zillinger T., Hartmann G., Di Pizio A., Ben Quashie N., Dikstein R., Gerlic M., Torrecilhas A. C., Levy C., Hoen E. N. M. N., Bowie A. G. & Regev-Rudzki N. (2021). Malaria parasites both repress host CXCL10 and use it as a cue for growth acceleration.  Nature Communications. 2021 Dec 1 , 12 (1).
  9. Kazachkova Y., Zemach I., Panda S., Bocobza S., Vainer A., Rogachev I., Dong Y., Ben-Dor S., Veres D., Kanstrup C., Lambertz S. K., Crocoll C., Hu Y., Shani E., Michaeli S., Nour-Eldin H. H., Zamir D. & Aharoni A. (2021). The GORKY glycoalkaloid transporter is indispensable for preventing tomato bitterness.  Nature Plants. 2021 Apr , 7 (4):468-480.
  10. Swain U., Friedlander G., Sehrawat U., Sarusi-Portuguez A., Rotkopf R., Ebert C., Paz-Elizur T., Dikstein R., Carell T., Geacintov N. E. & Livneh Z. (2021). Tent4a noncanonical poly(A) polymerase regulates dnadamage tolerance via multiple pathways that are mutated in endometrial cancer.  International Journal of Molecular Sciences. 2021 Jul 1 , 22 (13).
  11. Biram A., Winter E., Denton A. E., Zaretsky I., Dassa B., Bemark M., Linterman M. A., Yaari G. & Shulman Z. (2020). B Cell Diversification Is Uncoupled from SAP-Mediated Selection Forces in Chronic Germinal Centers within Peyer's Patches.  Cell Reports. 2020 Feb 11 , 30 (6):1910-1922.
  12. Assaraf E., Blecher R., Heinemann-Yerushalmi L., Krief S., Carmel Vinestock R., Biton I. E., Brumfeld V., Rotkopf R., Avisar E., Agar G. & Zelzer E. (2020). Piezo2 expressed in proprioceptive neurons is essential for skeletal integrity.  Nature Communications. 2020 Jun 23 , 11 (1).
  13. Amitai M., Taler M., Ben-Baruch R., Lebow M., Rotkopf R., Apter A., Fennig S., Weizman A. & Chen A. (2020). Increased circulatory IL-6 during 8-week fluoxetine treatment is a risk factor for suicidal behaviors in youth.  Brain Behavior And Immunity. 2020 Jul , 87 :301-308.
  14. Chen Q., Leshkowitz D., Blechman J. & Levkowitz G. (2020). Single-Cell Molecular and Cellular Architecture of the Mouse Neurohypophysis.  eNeuro. 2020 Jan 8 , 7 (1).
  15. Zaidman D., Prilusky J. & London N. (2020). PRosettaC: Rosetta based modeling of PROTAC mediated ternary complexes: Rosetta based modeling of PROTAC mediated ternary complexes.  Journal of Chemical Information and Modeling. 2020 Oct 26 , 60 (10):4894-4903.
  16. Agam A., Azuri I., Pinkas I., Gopher A. & Natalio F. (2020). Estimating temperatures of heated Lower Palaeolithic flint artefacts.  Nature Human Behaviour. 2020 Oct 5 , 4 (10):221-228.
  17. Eisenberg-Lerner A., Benyair R., Hizkiahou N., Nudel N., Maor R., Kramer M. P., Shmueli M. D., Zigdon I., Lev M. C., Ulman A., Sagiv J. Y., Dayan M., Dassa B., Rosenwald M., Shachar I., Li J., Wang Y., Dezorella N., Khan S., Shimoni E., Porat Z., Avinoam O. & Merbl Y. (2020). Golgi organization is regulated by proteasomal degradation.  Nature Communications. 2020 Jan 21 , 11 .
  18. Goldshtein H., Muhire A., Petel Legare V., Pushett A., Rotkopf R., Shefner J. M., Peterson R. T., Armstrong G. A. B. & Russek-Blum N. (2020). Efficacy of Ciprofloxacin/Celecoxib combination in zebrafish models of amyotrophic lateral sclerosis.  Annals of Clinical and Translational Neurology. 2020 Sept 11 , 7 (10):1883-1897.
  19. Olshina M. A., Arkind G., Deshmukh F. K., Fainer I., Taranavsky M., Hayat D., Ben-Dor S., Ben-Nissan G. & Sharon M. (2020). Regulation of the 20S Proteasome by a Novel Family of Inhibitory Proteins.  Antioxidants & Redox Signaling. 2020 Mar , 32 (9):636-655.
  20. Anbalagan S., Blechman J., Gliksberg M., Gordon L., Rotkopf R., Dadosh T., Shimoni E. & Levkowitz G. (2020). Erratum: Correction: Robo2 regulates synaptic oxytocin content by affecting actin dynamics (eLife (2019) 8 PII: e63695).  eLife. 2020 Oct 5 , 9 .