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Publication Metadata only 21 fs Cr:LiSAF laser mode locked with a single-walled carbon nanotube saturable absorber(Optical Soc Amer, 2019) Bae, Ji Eun; Rotermund, Fabian; Demirbaş, Ümit; N/A; N/A; N/A; Department of Physics; Tanısalı, Gökhan; Toker, Işınsu Baylam; Taşçı, Mısra; Sennaroğlu, Alphan; PhD Student; PhD Student; Undergraduate Student; Faculty Member; Department of Physics; Koç University Surface Science and Technology Center (KUYTAM) / Koç Üniversitesi Yüzey Teknolojileri Araştırmaları Merkezi (KUYTAM); Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; School of Medicine; College of Sciences; N/A; N/A; N/A; 23851We report the shortest femtosecond pulses directly generated from a solid-state laser that is mode locked by using a single-walled carbon nanotube saturable absorber (SWCNT-SA). In the experiments, we used a 660 nm diode-pumped, low-threshold extended-cavity Cr:LiSAF laser operating around 850 nm with a repetition rate of 47.9 MHz. The SWCNT-SA mode-locked Cr:LiSAF laser produced 21 fs pulses with a time-bandwidth product of 0.56 by using only 210 mW of pump power. Pump-probe spectroscopy measurements showed that the SWCNT-SA exhibited saturable absorption with slow and fast decay times of 2.7 ps and 0.4 ps. The single-pass modulation depth and saturation fluence of the SWCNT-SA were further determined as 0.3% and 45 mu J/cm(2) at the pump wavelength of 850 nm.Publication Metadata only 268th ENMC workshop - Genetic diagnosis, clinical classification, outcome measures, and biomarkers in Facioscapulohumeral Muscular Dystrophy (FSHD): Relevance for clinical trials(Elsevier B.V., 2023) Montagnese F, de Valle K, Lemmers RJLF, Mul K, Dumonceaux J, Voermans N; 268th ENMC workshop participants.; Oflazer, Piraye; ; School of Medicine;Highlights This ENMC workshop has seen the participation of many important stakeholders working together to improve trial readiness in FSHD: patients and patients’ organizations (FSHD-Europe, FSHD-Society and FSHD Global), neuromuscular clinicians, geneticists, basic researchers, representatives of the TREAT-NMD network, the FSHD-CTRN and EMA. COMs represent useful tools for the standardized collection of clinical features but need to be selected to match the clinical setting of use. For patient care, they need to be informative, with practical and time efficient utility so as not to detract from clinical care. For clinical trial purposes, the need to be reliable, valid, meaningful and sensitive to change to better depict therapeutic responses. An optimized clinical evaluation and genetic test form is one of the goals of WG1 and 2. A diagnostic flowchart for FSHD1 and FSHD2 has been proposed. Another important unmet need for clinical trial readiness in FSHD is the identification of good therapeutic biomarkers, which ideally should be quantitative, non-invasive, applicable across the entire range of disease severity, sensitive to change, reliable and clinically meaningful. The WG 3 will produce standard operating procedures (SOPs) for DUX4 detection. Similarly, large differences in the reporting of studies performed on animal models, thus hindering interpretation, repeatability and comparison of the results need to be addressed. Guidelines regarding minimum information for publication of work including animal models for FSHD will therefore be published.Publication Metadata only 2d -> 3d polycatenated and 3d -> 3d interpenetrated metal-organic frameworks constructed from thiophene-2,5-dicarboxylate and rigid bis(imidazole) ligands(Elsevier, 2014) Erer, Hakan; Yesilel, Okan Zafer; Arici, Mursel; Buyukgungor, Orhan; Department of Chemical and Biological Engineering; Keskin, Seda; Faculty Member; Department of Chemical and Biological Engineering; College of Engineering; 40548Hydrothermal reactions of rigid 1,4-bis(imidazol-1-yl)benzene (dib) and 1,4-bis(imidazol-1-yl)-2, 5-dimethylbenzene (dimb) with deprotonated thiophene-2,5-dicarboxylic acid (H(2)tdc) in the presence of Zn(II) and Cd(II) salts in H2O produced three new metal-organic frameworks, namely, [Zn(mu-tdc)(H2O) (mu-dib)](n) (1), [Cd(mu-tdc)(H2O)(mu-dib)(n) (2), and {[Cd-2(mu(3)-tdc)(2)(mu-dimb)(2)] center dot (H2O)}(n) (3). These MOFs were characterized by FT-IR spectroscopy, elemental, thermal (TG, DTA, DTG and DSC), and single-crystal X-ray diffraction analyses. Isomorphous complexes 1 and 2 reveal polycatenated 2D+2D -> 3D framework based on an undulated (4,4)-sql layer. Complex 3 exhibits a new 4-fold interpenetrating 3D framework with the point symbol of 6(6). Molecular simulations were used to assess the potentials of the complexes for H-2 storage application. Moreover, these coordination polymers exhibit blue fluorescent emission bands in the solid state at room temperature.Publication Metadata only 3D printed kombucha biomaterial as a tissue scaffold and L929 cell cytotoxicity assay(Wiley, 2024) Yanbakan, Edaguel; Tuncel, Tugba; Kocak Sezgin, Ayse; Bozoglan, Emirhan; Berikten, Derya; Kar, Fatih; Department of Molecular Biology and Genetics; Bağlan, İlkyaz; Department of Molecular Biology and Genetics; College of SciencesTissue engineering includes the construction of tissue-organ scaffold. The advantage of three-dimensional scaffolds over two-dimensional scaffolds is that they provide homeostasis for a longer time. The microbial community in Symbiotic culture of bacteria and yeast (SCOBY) can be a source for kombucha (kombu tea) production. In this study, it was aimed to investigate the usage of SCOBY, which produces bacterial cellulose, as a biomaterial and 3D scaffold material. 3D printable biomaterial was obtained by partial hydrolysis of oolong tea and black tea kombucha biofilms. In order to investigate the usage of 3D kombucha biomaterial as a tissue scaffold, "L929 cell line 3D cell culture" was created and cell viability was tested in the biomaterial. At the end of the 21st day, black tea showed 51% and oolong tea 73% viability. The cytotoxicity of the materials prepared by lyophilizing oolong and black tea kombucha beverages in fibroblast cell culture was determined. Black tea IC50 value: 7.53 mg, oolong tea IC50 value is found as 6.05 mg. Fibroblast viability in 3D biomaterial + lyophilized oolong and black tea kombucha beverages, which were created using the amounts determined to these values, were investigated by cell culture Fibroblasts in lyophilized and 3D biomaterial showed viability of 58% in black tea and 78% in oolong tea at the end of the 7th day. In SEM analysis, it was concluded that fibroblast cells created adhesion to the biomaterial. 3D biomaterial from kombucha mushroom culture can be used as tissue scaffold and biomaterial.Publication Open Access 3D printed microneedles for point of care biosensing applications(Multidisciplinary Digital Publishing Institute (MDPI), 2022) Department of Mechanical Engineering; Sarabi, Misagh Rezapour; Nakhjavani, Sattar Akbar; Taşoğlu, Savaş; Faculty Member; Department of Mechanical Engineering; Koç University Research Center for Translational Medicine (KUTTAM) / Koç Üniversitesi Translasyonel Tıp Araştırma Merkezi (KUTTAM); KU Arçelik Research Center for Creative Industries (KUAR) / KU Arçelik Yaratıcı Endüstriler Uygulama ve Araştırma Merkezi (KUAR); Koç Üniversitesi İş Bankası Yapay Zeka Uygulama ve Araştırma Merkezi (KUIS AI)/ Koç University İş Bank Artificial Intelligence Center (KUIS AI); Graduate School of Sciences and Engineering; College of Engineering; N/A; N/A; 291971Microneedles (MNs) are an emerging technology for user-friendly and minimally invasive injection, offering less pain and lower tissue damage in comparison to conventional needles. With their ability to extract body fluids, MNs are among the convenient candidates for developing biosensing setups, where target molecules/biomarkers are detected by the biosensor using the sample collected with the MNs. Herein, we discuss the 3D printing of microneedle arrays (MNAs) toward enabling point-of-care (POC) biosensing applications.Publication Metadata only 3D printed poly(lactic acid) scaffolds modified with chitosan and hydroxyapatite for bone repair applications(Elsevier, 2020) N/A; N/A; N/A; N/A; Department of Chemistry; Department of Chemical and Biological Engineering; Department of Chemistry; Nazeer, Muhammad Anwaar; Önder, Özgün Can; Sevgili, İlkem; Yılgör, Emel; Kavaklı, İbrahim Halil; Yılgör, İskender; PhD Student; PhD Student; PhD Student; Researcher; Faculty Member; Faculty Member; Department of Chemical and Biological Engineering; Department of Chemistry; Koç University Surface Science and Technology Center (KUYTAM) / Koç Üniversitesi Yüzey Teknolojileri Araştırmaları Merkezi (KUYTAM); Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; Graduate School of Sciences and Engineering; College of Sciences; College of Engineering; College of Sciences; N/A; N/A; N/A; N/A; 40319; 241813D printed poly(lactic acid) (PLA) scaffolds surface modified with chitosan (CS) and hydroxyapatite (HA) to produce a novel bioactive composite scaffold is reported. Excellent mechanical properties of PLA, the bioactivity of CS, and osteogenic characteristics of HA are combined to fabricate composite scaffolds using a simple desktop 3D printer. Scaffolds were characterized through attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy, scanning electron microscopy (SEM), energy dispersive X-ray (EDX) spectroscopy, X-ray diffraction (XRD) and water contact angle measurements before and after modification. Formic acid was used as a solvent to prepare stable CS/HA dispersions and was found to be a suitable solvent for producing PLA/CS/HA composites. Surface properties of modified scaffolds were superior in terms of hydrophilicity and bioactivity, which resulted in enhanced attachment and proliferation of human osteosarcoma cells in vitro compared to the unmodified PLA scaffolds.Publication Metadata only 3D surface topography analysis in 5-axis ball-end milling(Elsevier, 2017) N/A; Department of Mechanical Engineering; Khavidaki, Sayed Ehsan Layegh; Lazoğlu, İsmail; PHD Student; Faculty Member; Department of Mechanical Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; 179391This article presents a new analytical model to predict the topography and roughness of the machined surface in 5-axis ball-end milling operation for the first time. The model is able to predict the surface topography and profile roughness parameters such as 3D average roughness (Sa) and 3D root mean square roughness (Sq) by considering the process parameters such as the feedrate, number of flutes, step over and depth of cut as well as the effects of eccentricity and tool runout in 5-axis ball-end milling. This model allows to simulate the effects of the lead and tilt angles on the machined surface quality in the virtual environment prior to the costly 5-axis machining operations. The effectiveness of the introduced surface topography prediction model is validated experimentally by conducting 5-axis ball-end milling tests in various cutting conditions. (C) 2017 Published by Elsevier Ltd on behalf of CIRP.Publication Open Access A bacteria-derived tail anchor localizes to peroxisomes in yeast and mammalian cells(Nature Publishing Group (NPG), 2018) Seferoğlu, Ayşe Bengisu; Department of Molecular Biology and Genetics; Dunn, Cory David; Keskin, Abdurrahman; Akdoğan, Emel; Lutfullahoglu-Bal, Guleycan; Department of Molecular Biology and Genetics; College of SciencesProkaryotes can provide new genetic information to eukaryotes by horizontal gene transfer (HGT), and such transfers are likely to have been particularly consequential in the era of eukaryogenesis. Since eukaryotes are highly compartmentalized, it is worthwhile to consider the mechanisms by which newly transferred proteins might reach diverse organellar destinations. Toward this goal, we have focused our attention upon the behavior of bacteria-derived tail anchors (TAs) expressed in the eukaryote Saccharomyces cerevisiae. In this study, we report that a predicted membrane-associated domain of the Escherichia coli YgiM protein is specifically trafficked to peroxisomes in budding yeast, can be found at a pre-peroxisomal compartment (PPC) upon disruption of peroxisomal biogenesis, and can functionally replace an endogenous, peroxisome-directed TA. Furthermore, the YgiM(TA) can localize to peroxisomes in mammalian cells. Since the YgiM(TA) plays no endogenous role in peroxisomal function or assembly, this domain is likely to serve as an excellent tool allowing further illumination of the mechanisms by which TAs can travel to peroxisomes. Moreover, our findings emphasize the ease with which bacteria-derived sequences might target to organelles in eukaryotic cells following HGT, and we discuss the importance of flexible recognition of organelle targeting information during and after eukaryogenesis.Publication Metadata only A Bayesian generalized linear model for Crimean–Congo hemorrhagic fever incidents(Springer, 2018) Ryu, Duchwan; Bilgili, Devrim; Liang, Faming; Ebrahimi, Nader; Ergönül, Önder; Faculty Member; School of Medicine; 110398Global spread of the Crimean-Congo hemorrhagic fever (CCHF) is a fatal viral infection disease found in parts of Africa, Asia, Eastern Europe and Middle East, with a fatality rate of up to 30%. A timely prediction of the prevalence of CCHF incidents is highly desirable, while CCHF incidents often exhibit nonlinearity in both temporal and spatial features. However, the modeling of discrete incidents is not trivial. Moreover, the CCHF incidents are monthly observed in a long period and take a nonlinear pattern over a region at each time point. Hence, the estimation and the data assimilation for incidents require extensive computations. In this paper, using the data augmentation with latent variables, we propose to utilize a dynamically weighted particle filter to take advantage of its population controlling feature in data assimilation. We apply our approach in an analysis of monthly CCHF incidents data collected in Turkey between 2004 and 2012. The results indicate that CCHF incidents are higher at Northern Central Turkey during summer and that some beforehand interventions to stop the propagation are recommendable. Supplementary materials accompanying this paper appear on-line.Publication Metadata only A bi-criteria optimization model to analyze the impacts of electric vehicles on costs and emissions(Elsevier, 2017) N/A; N/A; Department of Industrial Engineering; Kabatepe, Bora; Türkay, Metin; Master Student; Faculty Member; Department of Industrial Engineering; Graduate School of Sciences and Engineering; College of Engineering; N/A; 24956Electric vehicles (EV) are emerging as a mobility solution to reduce emissions in the transportation sector. The studies environmental impact analysis of EVs in the literature are based on the average energy mix or pre-defined generation scenarios and construct policy recommendations with a cost minimization objective. However, the environmental performance of EVs depends on the source of the marginal electricity provided to the grid and single objective models do not provide a thorough analysis on the economic and environmental impacts of EVs. In this paper, these gaps are addressed by a four step methodology that analyzes the effects of EVs under different charging and market penetration scenarios. The methodology includes a bi-criteria optimization model representing the electricity market operations. The results from a real-life case analysis show that EVs decrease costs and emissions significantly compared to conventional vehicles.Publication Metadata only A bias phenomenon on the behavior of Dedekind sums(Int Press Boston, Inc, 2008) Xiong, Maosheng; Zaharescu, Alexandru; Department of Mathematics; Alkan, Emre; Faculty Member; Department of Mathematics; College of Sciences; 32803In this paper we present a bias phenomenon on the behavior of Dedekind sums at visible points in a dilated region. Our results indicate that in more than three quarters of the time the Dedekind sum increases as one moves from one visible point to the next.Publication Metadata only A Bilevel p-median model for the planning and protection of critical facilities(Springer, 2013) Aras, Necati; Piyade, Nuray; Department of Business Administration; Aksen, Deniz; Faculty Member; Department of Business Administration; College of Administrative Sciences and Economics; 40308The bilevel p-median problem for the planning and protection of critical facilities involves a static Stackelberg game between a system planner (defender) and a potential attacker. The system planner determines firstly where to open p critical service facilities, and secondly which of them to protect with a limited protection budget. Following this twofold action, the attacker decides which facilities to interdict simultaneously, where the maximum number of interdictions is fixed. Partial protection or interdiction of a facility is not possible. Both the defender's and the attacker's actions have deterministic outcome; i.e., once protected, a facility becomes completely immune to interdiction, and an attack on an unprotected facility destroys it beyond repair. Moreover, the attacker has perfect information about the location and protection status of facilities; hence he would never attack a protected facility. We formulate a bilevel integer program (BIP) for this problem, in which the defender takes on the leader's role and the attacker acts as the follower. We propose and compare three different methods to solve the BIP. The first method is an optimal exhaustive search algorithm with exponential time complexity. The second one is a two-phase tabu search heuristic developed to overcome the first method's impracticality on large-sized problem instances. Finally, the third one is a sequential solution method in which the defender's location and protection decisions are separated. The efficiency of these three methods is extensively tested on 75 randomly generated instances each with two budget levels. The results show that protection budget plays a significant role in maintaining the service accessibility of critical facilities in the worst-case interdiction scenario.Publication Metadata only A bootstrap method for identifying and evaluating a structural vector autoregression(Wiley-Blackwell, 2008) Hoover, Kevin D.; Perez, Stephen J.; Department of Economics; Demiralp, Selva; Faculty Member; Department of Economics; College of Administrative Sciences and Economics; 42533Graph-theoretic methods of causal search based on the ideas of Pearl (2000), Spirtes et al. (2000), and others have been applied by a number of researchers to economic data, particularly by Swanson and Granger (1997) to the problem of finding a data-based contemporaneous causal order for the structural vector autoregression, rather than, as is typically done, assuming a weakly justified Choleski order. Demiralp and Hoover (2003) provided Monte Carlo evidence that such methods were effective, provided that signal strengths were sufficiently high. Unfortunately, in applications to actual data, such Monte Carlo simulations are of limited value, as the causal structure of the true data-generating process is necessarily unknown. In this paper, we present a bootstrap procedure that can be applied to actual data (i.e. without knowledge of the true causal structure). We show with an applied example and a simulation study that the procedure is an effective tool for assessing our confidence in causal orders identified by graph-theoretic search algorithms.Publication Metadata only A bourdieuan relational perspective for entrepreneurship research(Wiley, 2014) Tatli, Ahu; Vassilopoulou, Joana; Forson, Cynthia; Slutskaya, Natasha; Department of Business Administration; Özbilgin, Mustafa; Other; Department of Business Administration; College of Administrative Sciences and Economics; N/AIn this paper, we illustrate the possibilities a relational perspective offers for overcoming the dominant dichotomies (e.g., qualitative versus quantitative, agency versus structure) that exist in the study of entrepreneurial phenomena. Relational perspective is an approach to research that allows the exploration of a phenomenon, such as entrepreneurship, as irreducibly interconnected sets of relationships. We demonstrate how Pierre Bourdieu's concepts may be mobilized to offer an exemplary toolkit for a relational perspective in entrepreneurship research.Publication Metadata only A CAM-based path generation method for rapid prototyping applications(Springer London Ltd, 2011) N/A; Department of Mechanical Engineering; Lazoğlu, İsmail; N/A; Faculty Member; Department of Mechanical Engineering; Manufacturing and Automation Research Center (MARC); N/A; College of Engineering; N/A; 179391A wide range of rapid prototyping (RP) methods are available commercially. Even though the hardware and production materials of these RP methods differ, their production techniques are built on the same idea: layer-by-layer material additive manufacturing. Whatever the material is used, it is deposited, vulcanized, or melted by following a pre-determined path, and each layer is stowed on the previous one to create the 3D model which is designed by using a computer-aided design program. The path which is followed while creating the model is very crucial. In this paper, a novel idea for path generation for RP processes is introduced. This new method is based on computer numerical controlled milling operation. Although the RP process and the milling process are completely opposite of each other since one of them is an additive and the other one is a subtractive method, the paths which are followed for these operations are very similar and based on the same idea: The progress goes on layer by layer. In this novel method, cutter location source files are used to create paths for RP processes. Examples of the prototypes produced by using this new method are also presented in the paper.Publication Metadata only A characterization of the invertible measures(Polish Acad Sciences Inst Mathematics, 2007) Department of Mathematics; Ülger, Ali; Faculty Member; Department of Mathematics; College of Sciences; N/ALet G be a locally compact abelian group and M(G) its measure algebra. Two measures mu and lambda are said to be equivalent if there exists an invertible measure pi such that pi * mu = lambda. The main result of this note is the following: A measure mu is invertible iff vertical bar(mu) over cap vertical bar >= epsilon on (G) over cap for some epsilon > 0 and mu is equivalent to a measure lambda of the form lambda = a + theta, where a is an element of L-1(G) and theta is an element of M(G) is an idempotent measure.Publication Open Access A class of Banach algebras whose duals have the Schur property(TÜBİTAK, 1999) Mustafayev, H.; Department of Mathematics; Ülger, Ali; Faculty Member; Department of Mathematics; College of SciencesCall a commutative Banach algebra A a γ-algebra if it contains a bounded group Λ such that aco(Λ) contains a multiple of the unit ball of A. In this paper, first by exhibiting several concrete examples, we show that the class of γ-algebras is quite rich. Then, for a γ-algebra A, we prove that A* has the Schur property iff the Gelfand spectrum Σ of A is scattered iff A* = ap(A) iff A* = Span(Σ).Publication Metadata only A class of banach algebras whose duals have the schur property(Scientific and Technical research Council of Turkey - TUBITAK/Türkiye Bilimsel ve Teknik Araştırma Kurumu, 1999) Mustafayev, Heybetkulu; Department of Mathematics; Ülger, Ali; Faculty Member; Department of Mathematics; College of Sciences; N/ACall a commutative Banach algebra A a γ-algebra if it contains a bounded group Λ such that aco(Λ) contains a multiple of the unit ball of A. In this paper, first by exhibiting several concrete examples, we show that the class of γ-algebras is quite rich. Then, for a γ-algebra A, we prove that A* has the Schur property iff the Gelfand spectrum Σ of A is scattered iff A* = ap(A) iff A* = Span(Σ).Publication Open Access A common genetic variation of melanoma inhibitory activity-2 labels a subtype of pancreatic adenocarcinoma with high endoplasmic reticulum stress levels.(Nature Publishing Group (NPG), 2015) Kong, Bo; Wu, Weiwei; Valkovska, Nataliya; Jager, Carsten; Hong, Xin; Nitsche, Ulrich; Friess, Helmut; Esposito, Irene; Kleeff, Joerg; Michalski, Christoph W.; N/A; Erkan, Murat Mert; Faculty Member; School of Medicine; 214689HNF1 homeoboxA(HNF1A)-mediated gene expression constitutes an essential component of the secretory pathway in the exocrine pancreas. Melanoma inhibitory activity 2 (MIA2), a protein facilitating protein secretion, is an HNF1A target. Protein secretion is precisely coordinated by the endoplasmic reticulum (ER) stress/unfolded protein response (UPR) system. Here, we demonstrate that HNFA and MIA2 are expressed in a subset of human PDAC tissues and that HNF1A induced MIA2 in vitro. We identified a common germline variant of MIA2 (c.A617G:p.I141M) associated with a secretory defect of the MIA2 protein in PDAC cells. Patients carrying MIA2(I141M) survived longer after tumor resection but the survival benefit was restricted to those patients who received adjuvant chemotherapy. The MIA2(I141M) variant was associated with high expression of ER stress/UPR genes - in particular those of the ERN1/XBP arm - in human PDAC samples. Accordingly, PDAC cell lines expressing the MIA2(I141M) variant expressed high levels of ERN1 and were more sensitive to gemcitabine. These findings define an interaction between the common MIA2(I141M) variant and the ER stress/UPR system and specify a subgroup of PDAC patients who are more likely to benefit from adjuvant chemotherapy.Publication Open Access A communication theoretical analysis of FRET-based mobile ad hoc molecular nanonetworks(Institute of Electrical and Electronics Engineers (IEEE), 2014) Kuşcu, Murat; Akan, Özgür Barış; Faculty Member; College of EngineeringNanonetworks refer to a group of nano-sized machines with very basic operational capabilities communicating to each other in order to accomplish more complex tasks such as in-body drug delivery, or chemical defense. Realizing reliable and high-rate communication between these nanomachines is a fundamental problem for the practicality of these nanonetworks. Recently, we have proposed a molecular communication method based on Forster Resonance Energy Transfer (FRET) which is a nonradiative excited state energy transfer phenomenon observed among fluorescent molecules, i.e., fluorophores. We have modeled the FRET-based communication channel considering the fluorophores as single-molecular immobile nanomachines, and shown its reliability at high rates, and practicality at the current stage of nanotechnology. In this study, for the first time in the literature, we investigate the network of mobile nanomachines communicating through FRET. We introduce two novel mobile molecular nanonetworks: FRET-based mobile molecular sensor/actor nanonetwork (FRET-MSAN) which is a distributed system of mobile fluorophores acting as sensor or actor node; and FRET-based mobile ad hoc molecular nanonetwork (FRETMAMNET) which consists of fluorophore-based nanotransmitter, nanoreceivers and nanorelays. We model the single message propagation based on birth death processes with continuous time Markov chains. We evaluate the performance of FRETMSAN and FRET-MAMNET in terms of successful transmission probability and mean extinction time of the messages, system throughput, channel capacity and achievable communication rates.