Boolean logic functions of a synthetic peptide network

Journal of the American Chemical Society
Gonen Ashkenasy, M Reza Ghadiri

Abstract

Living cells can process rapidly and simultaneously multiple extracellular input signals through the complex networks of evolutionary selected biomolecular interactions and chemical transformations. Recent approaches to molecular computation have increasingly sought to mimic or exploit various aspects of biology. A number of studies have adapted nucleic acids and proteins to the design of molecular logic gates and computational systems, while other works have affected computation in living cells via biochemical pathway engineering. Here we report that de novo designed synthetic peptide networks can also mimic some of the basic logic functions of the more complex biological networks. We show that segments of a small network whose graph structure is composed of five nodes and 15 directed edges can express OR, NOR, and NOTIF logic.

References

Dec 15, 1991·Proceedings of the National Academy of Sciences of the United States of America·A HjelmfeltJ Ross
Apr 28, 1995·Science·R J Lipton
Aug 1, 1994·Biophysical Journal·A Arkin, J Ross
Jul 12, 1996·Science·F GuarnieriC Bancroft
Aug 8, 1996·Nature·D H LeeM R Ghadiri
Oct 23, 1997·Science·Q OuyangA Libchaber
Oct 24, 1997·Nature·K SeverinM R Ghadiri
Jan 15, 1999·Science·U S Bhalla, R Iyengar
Jan 26, 2000·Nature·Q LiuL M Smith
Feb 5, 2000·Nature·M B Elowitz, S Leibler
Feb 5, 2000·Nature·T S GardnerJ J Collins
Mar 4, 2000·Proceedings of the National Academy of Sciences of the United States of America·D FaulhammerL F Landweber
Mar 22, 2001·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·J Vohradský
Jul 18, 2001·Journal of the American Chemical Society·A J KennanM R Ghadiri
May 25, 2002·Science·Călin C GuetStanislas Leibler
Aug 31, 2002·Science·E RavaszA L Barabási
Sep 17, 2002·Proceedings of the National Academy of Sciences of the United States of America·Alessandra Carbone, Nadrian C Seeman
Oct 26, 2002·Science·Tong Ihn LeeRichard A Young
Nov 15, 2002·Nature·Jeff HastyJ J Collins
Nov 27, 2002·Proceedings of the National Academy of Sciences of the United States of America·Yohei YokobayashiFrances H Arnold
Jan 9, 2003·Journal of the American Chemical Society·Alan SaghatelianM Reza Ghadiri
May 29, 2003·Journal of the American Chemical Society·Milan N Stojanović, Darko Stefanović
Aug 19, 2003·Nature Biotechnology·Milan N Stojanovic, Darko Stefanovic
Sep 27, 2003·Science·Harley H McAdams, Lucy Shapiro
Oct 8, 2003·Proceedings of the National Academy of Sciences of the United States of America·S Mangan, U Alon
Nov 20, 2003·Journal of the American Chemical Society·Hao YanJohn H Reif
Feb 10, 2004·Chemistry : a European Journal·A Prasanna de Silva, Nathan D McClenaghan
Jul 17, 2004·Proceedings of the National Academy of Sciences of the United States of America·Gonen AshkenasyM Reza Ghadiri

❮ Previous
Next ❯

Citations

Apr 4, 2008·Journal of Computer-aided Molecular Design·Jingchuan ZhuBo Liu
Nov 1, 2013·Chemical Reviews·Kepa Ruiz-MirazoAndrés de la Escosura
Jul 29, 2010·Journal of the American Chemical Society·Raghavendra KikkeriPeter H Seeberger
Oct 19, 2011·Journal of the American Chemical Society·Manuel RöthlingshöferNicolas Winssinger
Nov 14, 2013·Journal of the American Chemical Society·Morteza MalakoutikhahSijbren Otto
Dec 31, 2008·Journal of the American Chemical Society·Marina PrivmanEvgeny Katz
Jul 2, 2009·Journal of the American Chemical Society·David Margulies, Andrew D Hamilton
Sep 1, 2009·Journal of the American Chemical Society·Tania Konry, David R Walt
Mar 20, 2010·Journal of the American Chemical Society·Clara ShlizermanNurit Ashkenasy
Feb 3, 2012·Nano Letters·Johann ElbazItamar Willner
Jan 25, 2011·Nature Chemistry·David Yu Zhang, Georg Seelig
Jul 26, 2008·Nature Nanotechnology·A Prasanna de Silva, Seiichi Uchiyama
Oct 26, 2010·Nature Nanotechnology·Renjun PeiMilan N Stojanovic
Oct 10, 2006·Chemical Communications : Chem Comm·Jun MatsuiNaoki Sugimoto
Oct 19, 2006·Chemical Communications : Chem Comm·Simon M Turega, Douglas Philp
Oct 7, 2006·Chemical Communications : Chem Comm·Eleftherios Kassianidis, Douglas Philp
Jun 30, 2009·Molecular BioSystems·Yaakov Benenson
Jan 25, 2011·Physical Chemistry Chemical Physics : PCCP·Marcos PitaEvgeny Katz
May 1, 2012·The Analyst·Guiyun ZhangGuonan Chen
Jan 27, 2012·Molecular BioSystems·Jing Guo, Renqiang Yang
Mar 6, 2010·Proceedings of the National Academy of Sciences of the United States of America·David SoloveichikErik Winfree
May 2, 2009·The Journal of Chemical Physics·Nathaniel Wagner, Gonen Ashkenasy
Nov 8, 2006·Proceedings of the National Academy of Sciences of the United States of America·Tamara NiazovItamar Willner
Nov 18, 2014·Journal of the Royal Society, Interface·Matthew R LakinDarko Stefanovic
May 13, 2011·Trends in Biotechnology·Jeong Wook LeeSang Yup Lee
Mar 12, 2010·Current Opinion in Microbiology·Dokyun NaSang Yup Lee
Aug 21, 2007·Journal of Theoretical Biology·Nikhil GandhiEmmanuel Tannenbaum
May 14, 2016·Journal of the American Chemical Society·Ilaria BotteroDouglas Philp
Sep 1, 2007·Analytica Chimica Acta·David C MagriA Prasanna de Silva
Jan 6, 2007·Organic & Biomolecular Chemistry·Peyman NajmabadiMichael D Burkart
Feb 26, 2015·Chemical Communications : Chem Comm·Lilia GurevichGonen Ashkenasy
Feb 11, 2015·Chemical Communications : Chem Comm·Masanori ShigenoMasahiko Yamaguchi
Nov 4, 2017·Chemical Society Reviews·Tamara Kosikova, Douglas Philp
Aug 19, 2014·Nature Nanotechnology·Maxim P NikitinPetr I Nikitin
Oct 30, 2014·Chemistry : a European Journal·Zehavit DadonGonen Ashkenasy
Oct 16, 2013·Angewandte Chemie·Andrew J Bissette, Stephen P Fletcher
Nov 23, 2018·Physical Chemistry Chemical Physics : PCCP·Avia LeaderMeital Reches
Aug 29, 2006·Angewandte Chemie·Eleftherios Kassianidis, Douglas Philp
Jul 31, 2007·Chembiochem : a European Journal of Chemical Biology·Shinzi OgasawaraKenzo Fujimoto
Oct 19, 2007·Angewandte Chemie·Peter T CorbettSijbren Otto
Mar 20, 2008·Small·Nicolas H VoelckerM Reza Ghadiri
Apr 10, 2008·Chembiochem : a European Journal of Chemical Biology·Guinevere StrackEvgeny Katz

❮ Previous
Next ❯

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Proceedings of the National Academy of Sciences of the United States of America
Gonen AshkenasyM Reza Ghadiri
Proceedings of the National Academy of Sciences of the United States of America
Subhayu BasuRon Weiss
© 2021 Meta ULC. All rights reserved