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Items: 20

1.

Revisiting Trade-offs between Rubisco Kinetic Parameters.

Flamholz AI, Prywes N, Moran U, Davidi D, Bar-On YM, Oltrogge LM, Alves R, Savage D, Milo R.

Biochemistry. 2019 Aug 6;58(31):3365-3376. doi: 10.1021/acs.biochem.9b00237. Epub 2019 Jul 22.

2.

Chance and pleiotropy dominate genetic diversity in complex bacterial environments.

Noda-García L, Davidi D, Korenblum E, Elazar A, Putintseva E, Aharoni A, Tawfik DS.

Nat Microbiol. 2019 Jul;4(7):1221-1230. doi: 10.1038/s41564-019-0412-y. Epub 2019 Apr 1.

PMID:
30936490
3.

Author Correction: Genome-wide SWAp-Tag yeast libraries for proteome exploration.

Weill U, Yofe I, Sass E, Stynen B, Davidi D, Natarajan J, Ben-Menachem R, Avihou Z, Goldman O, Harpaz N, Chuartzman S, Kniazev K, Knoblach B, Laborenz J, Boos F, Kowarzyk J, Ben-Dor S, Zalckvar E, Herrmann JM, Rachubinski RA, Pines O, Rapaport D, Michnick SW, Levy ED, Schuldiner M.

Nat Methods. 2019 Feb;16(2):205. doi: 10.1038/s41592-018-0297-3.

PMID:
30602782
4.

Assessment of GFP Tag Position on Protein Localization and Growth Fitness in Yeast.

Weill U, Krieger G, Avihou Z, Milo R, Schuldiner M, Davidi D.

J Mol Biol. 2019 Feb 1;431(3):636-641. doi: 10.1016/j.jmb.2018.12.004. Epub 2018 Dec 12.

5.

A Bird's-Eye View of Enzyme Evolution: Chemical, Physicochemical, and Physiological Considerations.

Davidi D, Longo LM, Jabłońska J, Milo R, Tawfik DS.

Chem Rev. 2018 Sep 26;118(18):8786-8797. doi: 10.1021/acs.chemrev.8b00039. Epub 2018 Aug 22. Review.

PMID:
30133258
6.

Genome-wide SWAp-Tag yeast libraries for proteome exploration.

Weill U, Yofe I, Sass E, Stynen B, Davidi D, Natarajan J, Ben-Menachem R, Avihou Z, Goldman O, Harpaz N, Chuartzman S, Kniazev K, Knoblach B, Laborenz J, Boos F, Kowarzyk J, Ben-Dor S, Zalckvar E, Herrmann JM, Rachubinski RA, Pines O, Rapaport D, Michnick SW, Levy ED, Schuldiner M.

Nat Methods. 2018 Aug;15(8):617-622. doi: 10.1038/s41592-018-0044-9. Epub 2018 Jul 9. Erratum in: Nat Methods. 2019 Feb;16(2):205.

7.

The genetic basis for the adaptation of E. coli to sugar synthesis from CO2.

Herz E, Antonovsky N, Bar-On Y, Davidi D, Gleizer S, Prywes N, Noda-Garcia L, Lyn Frisch K, Zohar Y, Wernick DG, Savidor A, Barenholz U, Milo R.

Nat Commun. 2017 Nov 22;8(1):1705. doi: 10.1038/s41467-017-01835-3.

8.

Higher levels of myelin phospholipids in brains of neuronal α-Synuclein transgenic mice precede myelin loss.

Grigoletto J, Pukaß K, Gamliel A, Davidi D, Katz-Brull R, Richter-Landsberg C, Sharon R.

Acta Neuropathol Commun. 2017 May 8;5(1):37. doi: 10.1186/s40478-017-0439-3.

9.

Lessons on enzyme kinetics from quantitative proteomics.

Davidi D, Milo R.

Curr Opin Biotechnol. 2017 Aug;46:81-89. doi: 10.1016/j.copbio.2017.02.007. Epub 2017 Mar 10. Review.

PMID:
28288339
10.

Design principles of autocatalytic cycles constrain enzyme kinetics and force low substrate saturation at flux branch points.

Barenholz U, Davidi D, Reznik E, Bar-On Y, Antonovsky N, Noor E, Milo R.

Elife. 2017 Feb 7;6. pii: e20667. doi: 10.7554/eLife.20667.

11.

The Protein Cost of Metabolic Fluxes: Prediction from Enzymatic Rate Laws and Cost Minimization.

Noor E, Flamholz A, Bar-Even A, Davidi D, Milo R, Liebermeister W.

PLoS Comput Biol. 2016 Nov 3;12(11):e1005167. doi: 10.1371/journal.pcbi.1005167. eCollection 2016 Nov.

12.

Sugar Synthesis from CO2 in Escherichia coli.

Antonovsky N, Gleizer S, Noor E, Zohar Y, Herz E, Barenholz U, Zelcbuch L, Amram S, Wides A, Tepper N, Davidi D, Bar-On Y, Bareia T, Wernick DG, Shani I, Malitsky S, Jona G, Bar-Even A, Milo R.

Cell. 2016 Jun 30;166(1):115-25. doi: 10.1016/j.cell.2016.05.064. Epub 2016 Jun 23.

13.

Global characterization of in vivo enzyme catalytic rates and their correspondence to in vitro kcat measurements.

Davidi D, Noor E, Liebermeister W, Bar-Even A, Flamholz A, Tummler K, Barenholz U, Goldenfeld M, Shlomi T, Milo R.

Proc Natl Acad Sci U S A. 2016 Mar 22;113(12):3401-6. doi: 10.1073/pnas.1514240113. Epub 2016 Mar 7.

14.

Noise in gene expression is coupled to growth rate.

Keren L, van Dijk D, Weingarten-Gabbay S, Davidi D, Jona G, Weinberger A, Milo R, Segal E.

Genome Res. 2015 Dec;25(12):1893-902. doi: 10.1101/gr.191635.115. Epub 2015 Sep 9.

15.

Visual account of protein investment in cellular functions.

Liebermeister W, Noor E, Flamholz A, Davidi D, Bernhardt J, Milo R.

Proc Natl Acad Sci U S A. 2014 Jun 10;111(23):8488-93. doi: 10.1073/pnas.1314810111. Epub 2014 Jun 2.

16.

High-throughput assay for temporal kinetic analysis of lytic coliphage activity.

Davidi D, Sade D, Schuchalter S, Gazit E.

Anal Biochem. 2014 Jan 1;444:22-4. doi: 10.1016/j.ab.2013.09.007. Epub 2013 Sep 18.

PMID:
24055749
17.

A novel, sensitive assay for behavioral defects in Parkinson's disease model Drosophila.

Shaltiel-Karyo R, Davidi D, Menuchin Y, Frenkel-Pinter M, Marcus-Kalish M, Ringo J, Gazit E, Segal D.

Parkinsons Dis. 2012;2012:697564. doi: 10.1155/2012/697564. Epub 2012 Jul 25.

18.

An integrated open framework for thermodynamics of reactions that combines accuracy and coverage.

Noor E, Bar-Even A, Flamholz A, Lubling Y, Davidi D, Milo R.

Bioinformatics. 2012 Aug 1;28(15):2037-44. doi: 10.1093/bioinformatics/bts317. Epub 2012 May 29.

19.

Differential inhibition of α-synuclein oligomeric and fibrillar assembly in parkinson's disease model by cinnamon extract.

Shaltiel-Karyo R, Davidi D, Frenkel-Pinter M, Ovadia M, Segal D, Gazit E.

Biochim Biophys Acta. 2012 Oct;1820(10):1628-35. doi: 10.1016/j.bbagen.2012.04.021. Epub 2012 May 2.

PMID:
22575665
20.

The moderately efficient enzyme: evolutionary and physicochemical trends shaping enzyme parameters.

Bar-Even A, Noor E, Savir Y, Liebermeister W, Davidi D, Tawfik DS, Milo R.

Biochemistry. 2011 May 31;50(21):4402-10. doi: 10.1021/bi2002289. Epub 2011 May 4.

PMID:
21506553

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