{"title":"Optimal DNA Codes for Computing and Self-Assembly","authors":"M. Garzon, Vinhthuy T. Phan, A. Neel","doi":"10.4018/jnmc.2009010101","DOIUrl":"https://doi.org/10.4018/jnmc.2009010101","url":null,"abstract":"DNA has been re-discovered and explored in the last decade as a “smart glue” for self-assembly from the “bottom-up” at nanoscales through mesoscales to microand macro-scales. These applications require an unprecedented degree of precision in placing atom-scale components. Finding large sets of probes to serve as anchors for such applications has been thus explored in the last few years through several methods. We describe results of a tour de force to conduct an exhaustive search to produce large codes that are (nearly) maximal sets while guaranteeing high quality, as measured by the minimum Gibbs energy between any pair of code words, and other criteria. We also present a quantitative characterization of the sets for sizes up to 20-mers and show how critical building blocks can be extracted to produce codes of very high quality for larger lengths by probabilistic combinations, for which an exhaustive search is out of reach.","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"110 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115184379","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Organising Chemical Reaction Networks in Space and Time with Microfluidics","authors":"Gareth L. Jones, C. Lovell, H. Morgan, K. Zauner","doi":"10.4018/jnmc.2011010104","DOIUrl":"https://doi.org/10.4018/jnmc.2011010104","url":null,"abstract":"Information processing is essential for any lifeform to maintain its organisation despite continuous entropic disturbance. Macromolecules provide the ubiquitous underlying substrate on which nature implements information processing and have also come into focus for technical applications. There are two distinct approaches to the use of molecules for computing. Molecules can be employed to mimic the logic switches of conventional computers or they can be used in a way that exploits the complex functionality offered by a molecular computing substrate. Prerequisite to the latter is a mapping of the versatile means to achieve this. In the present paper we review microfluidic technology as a versatile means to achieve this, show how we use it, and provide proven recipes for its application.","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"31 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133943041","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"DNA Computing","authors":"Tao Song, Xun Wang, Shudong Wang, Yun Jiang","doi":"10.4018/978-1-61692-797-4.ch005","DOIUrl":"https://doi.org/10.4018/978-1-61692-797-4.ch005","url":null,"abstract":"Biomolecular computing, especially DNA computing, is a biologically inspired computing method. Biomolecular and bio-chemistry operations are introduced in solving hard problems in DNA computing. So it is quite a great advancement of soft computing in the 20th century and it also plays an important role in constructing low energy costing and huge information storing computing models. Nowadays it has been widely accepted as a new computing model for future computing devices in computer science. As we know, NPABStRACt","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"80 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115357985","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Computational Model Based on Evolutionary Primitives: Turing Machine Generalization","authors":"O. Granichin, V. Vasilev","doi":"10.4018/jnmc.2010010103","DOIUrl":"https://doi.org/10.4018/jnmc.2010010103","url":null,"abstract":"","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"93 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130895901","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Application of Gabor Wavelet in Quantum Holography for Image Recognition","authors":"Nuo Wi Noel Tay, C. Loo, M. Perus","doi":"10.4018/jnmc.2010010104","DOIUrl":"https://doi.org/10.4018/jnmc.2010010104","url":null,"abstract":"Gabor wavelet is considered the best mathematical descriptor for receptive fields in the striate cortex. As a basis function, it is suitable to sparsely represent natural scenes due to its property in maximizing information. It is argued that Gabor-like receptive fields emerged by the sparseness-enforcing or infomax method, with sparseness-enforcing being more biologically plausible. This paper incorporates Gabor over-complete representation into Quantum Holography for image recognition tasks. Correlations are performed using sampled result from all frequencies as well as the optimum frequency. Correlation is also performed using only those points of least activity, which shows improvements in recognition. Analysis on the use of conjugation in reconstruction is provided. The authors also suggest improvements through iterative methods for reconstruction.","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128569327","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Unconventional Computing in the Built Environment","authors":"Rachel Armstrong","doi":"10.4018/jnmc.2011010101","DOIUrl":"https://doi.org/10.4018/jnmc.2011010101","url":null,"abstract":"The Synthetic Biology engineering based approach to living systems intersects with the new interdisciplinary field of unconventional computing and suggests a new method for design in architectural practice. Living systems possess unique properties that are not present in digital/mechanical systems - their sensors and effectors are intrinsically coupled, perform parallel forms of computation, are able to respond to unpredictable circumstances, respond in real time to environmental changes, and possess a robustness that can result in evolutionary change. This paper proposes how living technology, operating through the principles of unconventional computing could offer new environmentally remediating materials for architectural practice using a bottom-up approach to the construction of buildings and other human-made interventions.","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"10 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122013913","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"An Analytically Tractable Model of Large Network: Dynamics and Reliability","authors":"S. Vakulenko, M. Zimin","doi":"10.4018/jnmc.2010010101","DOIUrl":"https://doi.org/10.4018/jnmc.2010010101","url":null,"abstract":"","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"49 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129547895","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The Crystal Computer - Computing with Inorganic Cellular Frameworks and Nets","authors":"M. Symes, L. Cronin","doi":"10.4018/jnmc.2011010103","DOIUrl":"https://doi.org/10.4018/jnmc.2011010103","url":null,"abstract":"The enormous potential of parallel computing has led to the first prototype devices being constructed. However, all the examples to date rely on complicated chemical and/or physical manipulations, and hence do not lend themselves to the kind of widespread investigation necessary to advance the field. This article presents a new paradigm for parallel computing: the use of solid, single crystalline materials as cellular automata suggesting the idea of the “Crystal Computer,” now possible due to a new class of crystalline cellular materials that undergo single-crystal-to-single-crystal (SC-SC) oxidation and reduction (REDOX) reactions. Two avenues are proposed for investigation: reversible single-crystal to single-crystal electronic transformations and solid-state spin transfer within spin-crossover complexes. Both schemes allow computation to occur in three dimensions, within cheap and easy to assemble materials and using commonplace techniques for input and readout.","PeriodicalId":259233,"journal":{"name":"Int. J. Nanotechnol. Mol. Comput.","volume":"12 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123538990","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}