Table Of ContentModeling and Optimization in Science and Technologies
Junichi Suzuki
Tadashi Nakano
Michael John Moore Editors
Modeling,
Methodologies and
Tools for Molecular
and Nano-scale
Communications
Modeling, Methodologies and Tools
Modeling and Optimization in Science
and Technologies
Volume 9
Series editors
Srikanta Patnaik, SOA University, Bhubaneswar, India
e-mail: [email protected]
Ishwar K. Sethi, Oakland University, Rochester, USA
e-mail: [email protected]
Xiaolong Li, Indiana State University, Terre Haute, USA
e-mail: [email protected]
Editorial Board
Li Cheng, The Hong Kong Polytechnic University, Hong Kong
Jeng-Haur Horng, National Formosa University, Yulin, Taiwan
Pedro U. Lima, Institute for Systems and Robotics, Lisbon, Portugal
Mun-Kew Leong, Institute of Systems Science, National University of Singapore
Muhammad Nur, Diponegoro University, Semarang, Indonesia
Luca Oneto, University of Genoa, Italy
Kay Chen Tan, National University of Singapore, Singapore
Sarma Yadavalli, University of Pretoria, South Africa
Yeon-Mo Yang, Kumoh National Institute of Technology, Gumi, South Korea
Liangchi Zhang, The University of New South Wales, Australia
Baojiang Zhong, Soochow University, Suzhou, China
Ahmed Zobaa, Brunel University, Uxbridge, Middlesex, UK
About this Series
The book series Modeling and Optimization in Science and Technologies (MOST)
publishesbasicprinciplesaswellasnoveltheoriesandmethodsinthefast-evolving
fieldofmodelingandoptimization.Topicsofinterestinclude,butarenotlimitedto:
methods for analysis, design and control of complex systems, networks and
machines; methods for analysis, visualization and management of large data sets;
use of supercomputers for modeling complex systems; digital signal processing;
molecular modeling; and tools and software solutions for different scientific and
technological purposes.Special emphasis isgiven to publicationsdiscussing novel
theories and practical solutions that, by overcoming the limitations of traditional
methods, may successfully address modern scientific challenges, thus promoting
scientificandtechnologicalprogress.Theseriespublishesmonographs,contributed
volumes and conference proceedings, as well as advanced textbooks. The main
targetsoftheseriesaregraduatestudents,researchersandprofessionalsworkingat
the forefront of their fields.
More information about this series at http://www.springer.com/series/10577
⋅
Junichi Suzuki Tadashi Nakano
Michael John Moore
Editors
Modeling, Methodologies
and Tools for Molecular
and Nano-scale
Communications
Modeling, Methodologies and Tools
123
Editors
JunichiSuzuki Michael John Moore
Department ofComputer Science PennsylvaniaState University
University of Massachusetts State College, PA
Boston, MA USA
USA
Tadashi Nakano
Graduate Schoolof Biological Sciences
Osaka University
Osaka
Japan
ISSN 2196-7326 ISSN 2196-7334 (electronic)
Modeling andOptimization inScience andTechnologies
ISBN978-3-319-50686-9 ISBN978-3-319-50688-3 (eBook)
DOI10.1007/978-3-319-50688-3
LibraryofCongressControlNumber:2016959967
©SpringerInternationalPublishingAG2017
Thisworkissubjecttocopyright.AllrightsarereservedbythePublisher,whetherthewholeorpart
of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations,
recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission
orinformationstorageandretrieval,electronicadaptation,computersoftware,orbysimilarordissimilar
methodologynowknownorhereafterdeveloped.
The use of general descriptive names, registered names, trademarks, service marks, etc. in this
publicationdoesnotimply,evenintheabsenceofaspecificstatement,thatsuchnamesareexemptfrom
therelevantprotectivelawsandregulationsandthereforefreeforgeneraluse.
The publisher, the authors and the editors are safe to assume that the advice and information in this
book are believed to be true and accurate at the date of publication. Neither the publisher nor the
authorsortheeditorsgiveawarranty,expressorimplied,withrespecttothematerialcontainedhereinor
foranyerrorsoromissionsthatmayhavebeenmade.
Printedonacid-freepaper
ThisSpringerimprintispublishedbySpringerNature
TheregisteredcompanyisSpringerInternationalPublishingAG
Theregisteredcompanyaddressis:Gewerbestrasse11,6330Cham,Switzerland
Preface
Nanoscalecommunicationhasemergedasanewresearchtopicincommunications
engineering. The term “nano” typically refers to the dimensions from a nanometer
to hundred nanometers, and nanoscale communication is loosely defined as com-
municationthatmayoccur inthatrange. Communicationengineers havestartedto
investigate two distinct forms of nanoscale communication: molecular communi-
cation and electromagnetic-based nanoscale communication. In molecular com-
munication, chemical signals are used for communication among nano- or
microscaledevices,while inEM-basednanoscalecommunication,electromagnetic
waves are used. As nanoscale communication further develops, it may enable new
applications in medicine, environment, and industry. It may also enable the inte-
gration of nano- or microscale devices into currently available communication
networks to form future communication networks.
The research area of nanoscale communication is rapidly growing as evidenced
by an increasing number of papers that have been published in recent years. In
editing this book, our goal was to collect, from leading experts of nanoscale
communication, comprehensive summary articles with recent research results on
nanoscale communication. Toward this goal, this book consists of 24 articles col-
lectively covering
(cid:129) Fundamentals of Molecular Communication (Chapters “Concentration-
Encoded Molecular Communication in Nanonetworks. Part 1: Fundamentals,
Issues, and Challenges”–“An Architecture of Calcium Signaling for Molecular
Communication Based Nano Network”), in which signal processing, commu-
nication theory, architectures, and protocols for molecular communication are
presented,
(cid:129) Molecular Communication in Biology (Chapters “On Regulation of Neuro-
spikeCommunicationforHealthyBrain”–“QuantifyingRobustnessinBiological
NetworksUsingNS-2”),inwhichsignalpropagationinthebrain,inter-molecule
interactions,generegulatorynetworks,andcellcommunicationarestudied,
v
vi Preface
(cid:129) Electromagnetic–Based Nano-scale Communication (Chapters
“Fundamentals of Graphene-Enabled Wireless On-Chip Networking”–
NanoscaleCommunicationsBasedonFluorescenceResonanceEnergyTransfer
(FRET)”), in which system design and methods of electromagnetic-based
nanoscale communication are presented,
(cid:129) NanomaterialandNanostructure(Chapters“Ultrasonics—AnEffectiveNon-
invasiveTooltoCharacterizeNanofluids”–“ReliableDesignforCrossbarNano-
architectures”), in which nanotechnology for applied purposes such as security
and computing is discussed,
(cid:129) Medical Applications of Nanoscale Communication (Chapters “Effect of
Aging, Disease Versus Health Conditions in the Design of Nano-
communications in Blood Vessels”–“Computational Biosensors: Molecules,
Algorithms, and Detection Platforms”), in which disease diagnosis, drug
delivery, and biomolecular sensing are presented.
Webelievethisbookservesasapointofreferencesforstudentsandresearchers
who are interested in this emerging area of nanoscale communication as well as
those who are working in the area. Finally, we thank all chapters’ authors and
reviewers who made this book possible.
Boston, MA, USA Junichi Suzuki
Osaka, Japan Tadashi Nakano
State College, PA, USA Michael John Moore
Contents
Part I Fundamentals of Molecular Communication
Concentration-Encoded Molecular Communication in Nanonetworks.
Part 1: Fundamentals, Issues, and Challenges .... .... .... ..... .... 3
Mohammad Upal Mahfuz, Dimitrios Makrakis and Hussein T. Mouftah
Concentration-Encoded Molecular Communication in Nanonetworks.
Part 2: Performance Evaluation ... .... .... .... .... .... ..... .... 35
Mohammad Upal Mahfuz, Dimitrios Makrakis and Hussein T. Mouftah
Physical Channel Model for Molecular Communications.... ..... .... 57
Humaun Kabir and Kyung Sup Kwak
Modulation in Molecular Communications: A Look
on Methodologies .. .... .... ..... .... .... .... .... .... ..... .... 79
Ecehan Berk Pehlivanoglu, Bige Deniz Unluturk and Ozgur Baris Akan
Modulation Techniques for Molecular Communication via Diffusion..... . 99
H. Birkan Yilmaz, Na-Rae Kim and Chan-Byoung Chae
The Use of Coding and Protocols Within Molecular Communication
Systems .. .... .... .... .... ..... .... .... .... .... .... ..... .... 119
MarkS.Leeson,MatthewD.Higgins,ChenyaoBai,YiLu,XiayangWang
and Ruixiao Yu
Understanding Communication via Diffusion: Simulation Design and
Intricacies .... .... .... .... ..... .... .... .... .... .... ..... .... 139
Bilal Acar, Ali Akkaya, Gaye Genc, H. Birkan Yilmaz, M. Şükrü Kuran
and Tuna Tugcu
An Architecture of Calcium Signaling for Molecular Communication
Based Nano Network ... .... ..... .... .... .... .... .... ..... .... 165
Amitava Mukherjee, Sushovan Das and Soumallya Chatterjee
vii
viii Contents
Part II Molecular Communication in Biology
On Regulation of Neuro-spike Communication for Healthy Brain . .... 207
Mladen Veletić, Pål Anders Floor, Rié Komuro and Ilangko Balasingham
Molecular Dynamics Simulations of Biocorona Formation .. ..... .... 241
Rongzhong Li, Cody A. Stevens and Samuel S. Cho
Modeling Cell Communication by Communication Engineering... .... 257
Jian-Qin Liu and Wuyi Yue
Quantifying Robustness in Biological Networks Using NS-2 . ..... .... 273
Bhanu K. Kamapantula, Ahmed F. Abdelzaher, Michael Mayo,
Edward J. Perkins, Sajal K. Das and Preetam Ghosh
Part III Electromagnetic-Based Nano-scale Communication
Fundamentals of Graphene-Enabled Wireless On-Chip Networking....... 293
Sergi Abadal, Ignacio Llatser, Albert Mestres, Josep Solé-Pareta,
Eduard Alarcón and Albert Cabellos-Aparicio
Energy Harvesting in Nanonetworks.... .... .... .... .... ..... .... 319
Shahram Mohrehkesh, Michele C. Weigle and Sajal K. Das
NanoscaleCommunicationsBasedonFluorescenceResonanceEnergy
Transfer (FRET)... .... .... ..... .... .... .... .... .... ..... .... 349
Murat Kuscu and Ozgur B. Akan
Part IV Nanomaterial and Nanostructure
Ultrasonics—An Effective Non-invasive Tool to Characterize
Nanofluids .... .... .... .... ..... .... .... .... .... .... ..... .... 379
M. Nabeel Rashin and J. Hemalatha
RF Nanostructured Security.. ..... .... .... .... .... .... ..... .... 401
Mohamed Kheir, Heinz Kreft, Iris Hölken and Reinhard Knöchel
Reliable Design for Crossbar Nano-architectures.. .... .... ..... .... 421
Masoud Zamani and Mehdi B. Tahoori
Part V Medical Applications of Nanoscale Communication
Effect of Aging, Disease Versus Health Conditions in the Design
of Nano-communications in Blood Vessels ... .... .... .... ..... .... 447
Luca Felicetti, Mauro Femminella, Pietro Liò and Gianluca Reali
Electromagnetic Nanonetworks for Sensing and Drug Delivery ... .... 473
Renato Iovine, Valeria Loscrì, Sara Pizzi, Richard Tarparelli
and Anna Maria Vegni
Contents ix
CommunicationofDrugLoadedNanogelswithCancerCellReceptors
for Targeted Delivery... .... ..... .... .... .... .... .... ..... .... 503
Govind Soni and Khushwant S. Yadav
Modeling, Analysis and Design of Bio-hybrid Micro-robotic Swarms
for Medical Applications .... ..... .... .... .... .... .... ..... .... 517
Guopeng Wei, Paul Bogdan and Radu Marculescu
Computational Biosensors: Molecules, Algorithms, and Detection
Platforms. .... .... .... .... ..... .... .... .... .... .... ..... .... 541
Elebeoba E. May, Jason C. Harper and Susan M. Brozik
Digital Body... .... .... .... ..... .... .... .... .... .... ..... .... 579
Aftab Ahmad
