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Researchers
  • Prof.  Hanah Margalit
Prof Hanah Margalit
 
Research Interests
We study regulation of gene expression by non-coding RNAs (small RNAs (sRNAs) in bacteria and miRNAs in eukaryotes), and its integration with transcription regulation and protein-protein interactions.
Our laboratory is interdisciplinary, combining state-of-the-art wet-lab experiments with advanced computational analyses.
Our projects include: deciphering sRNA-target interactions at a transcriptome-wide scale; implications of competition between target mRNAs over binding to their sRNA (miRNA) co-regulator; regulatory circuits involving small RNAs and transcription factors; new mechanisms of action of miRNAs and sRNAs; involvement of miRNAs in virus-host interaction; cleavage patterns of RNA nucleases in the cell.
The projects in the lab are conducted either by lab members with interdisciplinary background in computer science and life sciences, or by fruitful collaborations between lab members with complementary backgrounds in life sciences, medical sciences, computer science, and physics.
Lab Website Courses
  • 72677 - Bioinformatics: Computerized Analysis of Biological Sequences
  • 76554 - Computational Methods in Molecular Biology Lab
  • 76556 - Seminar in Research Methods in Computational Biology
  • 81865 - From Networks to Molecules
  • 94665 - Bioinformatics: Basic Sequence Analysis Tools
  • 94613 - The Genomic Revolution
  • 94615 - Clinical and Scientific Implications of the Genomic Revolution
Publications
Integration of Bacterial Small RNAs in Regulatory Networks., Nitzan M, Rehani R, Margalit H., Annu Rev Biophys. 2017 May 22;46:131-148. doi: 10.1146/annurev-biophys-070816-034058. Review.
Global Mapping of Small RNA-Target Interactions in Bacteria., Melamed S, Peer A, Faigenbaum-Romm R, Gatt YE, Reiss N, Bar A, Altuvia Y, Argaman L, Margalit H., Mol Cell. 2016 Sep 1;63(5):884-97. doi: 10.1016/j.molcel.2016.07.026.
Stochastic analysis of bistability in coherent mixed feedback loops combining transcriptional and posttranscriptional regulations., Nitzan M, Shimoni Y, Rosolio O, Margalit H, Biham O., Phys Rev E Stat Nonlin Soft Matter Phys. 2015 May;91(5):052706. Epub 2015 May 15.
Degradation of Ndd1 by APC/C(Cdh1) generates a feed forward loop that times mitotic protein accumulation., Sajman J, Zenvirth D, Nitzan M, Margalit H, Simpson-Lavy KJ, Reiss Y, Cohen I, Ravid T, Brandeis M., Nat Commun. 2015 May 11;6:7075. doi: 10.1038/ncomms8075.
A defense-offense multi-layered regulatory switch in a pathogenic bacterium., Nitzan M, Fechter P, Peer A, Altuvia Y, Bronesky D, Vandenesch F, Romby P, Biham O, Margalit H., Nucleic Acids Res. 2015 Feb 18;43(3):1357-69. doi: 10.1093/nar/gkv001. Epub 2015 Jan 27.
Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions., Peer A, Margalit H., RNA. 2014 Jul;20(7):994-1003. doi: 10.1261/rna.043133.113. Epub 2014 May 27.
Interactions between distant ceRNAs in regulatory networks., Nitzan M, Steiman-Shimony A, Altuvia Y, Biham O, Margalit H., Biophys J. 2014 May 20;106(10):2254-66. doi: 10.1016/j.bpj.2014.03.040.
Auxiliary tRNAs: large-scale analysis of tRNA genes reveals patterns of tRNA repertoire dynamics., Wald N, Margalit H., Nucleic Acids Res. 2014 Jun;42(10):6552-66. doi: 10.1093/nar/gku245. Epub 2014 Apr 29.
Global regulation of transcription by a small RNA: a quantitative view., Nitzan M, Wassarman KM, Biham O, Margalit H., Biophys J. 2014 Mar 4;106(5):1205-14. doi: 10.1016/j.bpj.2014.01.025.
In vivo mapping of RNA-RNA interactions in Staphylococcus aureus using the endoribonuclease III., Lioliou E, Sharma CM, Altuvia Y, Caldelari I, Romilly C, Helfer AC, Margalit H, Romby P., Methods. 2013 Sep 15;63(2):135-43. doi: 10.1016/j.ymeth.2013.06.033. Epub 2013 Jul 9.
A functional selection model explains evolutionary robustness despite plasticity in regulatory networks., Habib N, Wapinski I, Margalit H, Regev A, Friedman N., Mol Syst Biol. 2012;8:619. doi: 10.1038/msb.2012.50.
Competition between small RNAs: a quantitative view., Loinger A, Shemla Y, Simon I, Margalit H, Biham O., Biophys J. 2012 Apr 18;102(8):1712-21. doi: 10.1016/j.bpj.2012.01.058.
Codon usage bias in prokaryotic pyrimidine-ending codons is associated with the degeneracy of the encoded amino acids., Wald N, Alroy M, Botzman M, Margalit H., Nucleic Acids Res. 2012 Aug;40(15):7074-83. doi: 10.1093/nar/gks348. Epub 2012 May 11.
Reduced polymorphism in domains involved in protein-protein interactions., Itzhaki Z, Margalit H., PLoS One. 2012;7(4):e34503. doi: 10.1371/journal.pone.0034503. Epub 2012 Apr 3.
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