Public Articles
A Moral Imperative: Open Science in the Ebola Crisis
and 3 collaborators
Last June, a dedicated global team of Ebola researchers began an ambitious project to track the virus using large-scale genome sequencing. Their research, published June 18 in Cell, reveals critical information about how the virus traveled and spread over seven months of the recent Ebola outbreak.
The team, which included researchers from over a dozen institutions, made a conscious decision to pursue Open Science practices for this project.
One choice they made was to write their paper on Authorea, a new science editing and publishing website.
The full working version of the paper is now available to the public on Authorea. By using the “History” feature, readers can get a behind-the-scenes look at how the research came together, including every edit and change from the writing process.
“When we were kicking off the study, we discussed how much we would open up what we’re doing,” said co-lead author Danny Park. “Our team comes out of the Human Genome Project, so culturally we come from the open science ’put everything out there’ background. And especially in this kind of emergency situation there’s a moral imperative” to publish the data openly and quickly, he said.
The team chose Authorea in order to make the writing process transparent. Authorea’s History feature allows the public to view every change made during the writing process. Because key technical sentences were revised and words chosen carefully over time, the evolution of the document can be educational, said Dr. Park.
Authorea was just one of many tools used by the research team to publish their work as quickly and openly as possible. The team:
Published their raw genome data to the GenBank database and Virological.org online forum as soon as it was collected, so that other research teams could use and discuss the data immediately
Released demographic and clinical metadata on a special website to enable other researchers to spot important trends
Set up a new website to gather and visualize data from multiple research groups
Published a Comment in Nature strongly advocating open sharing of data during this and future outbreaks
Chose Authorea as a platform to write and edit their draft manuscript, allowing readers to view the writing process with full transparency
Published their article as fully Open Access in Cell
“One of the most rewarding aspects of working in this outbreak response is the connections we have made with so many extraordinary individuals through open data sharing”, said senior author Pardis Sabeti.
The goal of Open Science principles is to produce stronger, more reproducible, transparent scientific results as quickly as possible. It’s a virtuous circle: openness begets collaboration begets more openness. And in a serious outbreak like the recent Ebola epidemic, more open research can quite literally save lives.
About Authorea:
Authorea is an online word processor that makes research writing and publishing faster and easier. Created by scientists, for scientists, Authorea encourages and supports Open Science, transparency, and collaboration.
With over 41000 users and a weekly growth rate that has doubled in the past nine months, Authorea is currently the fastest-growing science publishing platform in the world.
Other Resources
Authorea contacts
Alberto Pepe, co-founder and CEO, Authorea: [email protected], +1 (310) 600-3929
Jace Harker, Growth and Community: [email protected], +1 585-737-6459
Tanya Anderson, Outreach: [email protected]
Key author contacts
Danny Park: [email protected]
(*Out of date*) On the Fluxes and Rates of Fast Radio Bursts
The “fast radio burst” (FRB) is a new class of transient found in a variety of single-dish pulsar surveys \citep{2007Sci...318..777L,2011MNRAS.415.3065K,2013Sci...341...53T,2014arXiv1404.2934S}. FRBs are identified by their large dispersion measure (DM), which has been observed as high as 1100 pc cm−3, an order of magnitude larger than expected from the Galaxy. The simplest explanation for this large DM is that the bursts are dispersed by the intergalactic medium (IGM), implying that they originate at distances up to z∼1.
If FRBs are cosmological, then they could be used to probe the intergalactic medium and study processes for their formation \citep[e.g., double neutron star mergers][]{2013PASJ...65L..12T}. However, terrestrial phenomena known as perytons have been discovered at the same telescopes finding FRBs \citep{2011ApJ...727...18B}. Perytons are impulsive radio transients with a width of tens of ms and an apparent DM of a few hundred, partially overlapping with characteristics expected of extragalactic radio transients. \citet{2014arXiv1402.4766K} suggest that perytons and FRBs are the same, terrestrial process seen in different optical regimes of the telescopes. It will be critical to distinguish these populations to be certain that FRBs are are astrophyiscal.
One way to understand their nature is to build statistical tests... Euclidean distribution... Rate constraint for future observing campaigns...
We are in the midst of a large survey with the Karl G. Jansky Very Large Array (VLA) to detect an FRB \citep[results in][]{law2014a}. The nondetection in that survey inspired us to reanalyze published rates in an attempt to make a reliable prediction for FRB rates for any given survey. Here, we present our estimate of the apparent flux distribution of FRBs to determine if they are consistent with an astrophysical population. We then use a Bayesian technique to estimate the FRB rate for a given telescope flux limit.
The Linked Paleo Data framework: a common tongue for paleoclimatology
and 1 collaborator
Paleoclimatology is a highly collaborative scientific endeavor, increasingly reliant on online databases for data sharing. Yet, there is currently no universal way to describe, store and share paleoclimate data: in other words, no standard. Data standards are often regarded by scientists as mere technicalities, though they underlie much scientific and technological innovation, as well as facilitating collaborations between research groups. In this article, we propose a preliminary data standard for paleoclimate data, general enough to accommodate all the proxy and measurement types encountered in a large international collaboration (PAGES2K). We also introduce a vehicle for such structured data (Linked Paleo Data, or LiPD), leveraging recent advances in knowledge representations (Linked Open Data).
The LiPD framework enables quick querying and extraction, and we expect that it will facilitate the writing of open-source, community codes to access, analyze, model and visualize paleoclimate observations. We welcome community feedback on this standard, and encourage paleoclimatologists to experiment with the format for their own purposes.
Transferability Study of Video Tracking Optimization for Traffic Data Collection and Analysis
and 3 collaborators
Informe Final SIN IMAGENES Química de Superficies y Coloides Licenciatura en Química FCE-UNLP
and 3 collaborators
El presente informe, resume los distintos trabajos experimentales realizados durante el curso de Quimica de Superficies y Coloides, de la Licenciatura en Quimica, de la Facultad de Ciencias Exactas, UNLP. En la asignatura, se nos consignó reproducir algunos trabajos publicados en el Journal of Chemical Education1, a fin de abordar un tópico de actualidad científica y cercano, a su vez, al trabajo de grado. Una vez seleccionados los trabajos, se debió planificar qué técnicas se iban a aplicar a cada sistema, en función de sus características. Es sabido que no todo trabajo publicado es perfectamente reproducible: Las condiciones y/o variables que afectan a un sistema no siempre son perfectamente conocidas o identificadas, debido a que ciertos tópicos no pueden abundar en los detalles de experiencias ya descriptos en otros trabajos, o se omiten por causas varias. Esto, sin lugar a dudas, creó la incertidumbre que motivó la búsqueda bibliográfica complementaria y constituyó gran parte del interés (posteriormente desarrollado) en la comprensión del sistema de estudio.
http://pubs.acs.org/journal/jceda8↩
Design of a Silicon based Mach-Zehnder Interferometer and Two-stage optical filter
This design proposal is about the study of an optical device known as the Mach-Zehnder interferometer (MZI) via simulation and to verify its operation experimentally. The device will be fabricated using Silicon over Insulator (SOI) technology. These types of interferometers are commonly employed in telecommunications applications such as switches, modulators and filters. Also, in sensing applications, MZI’s are commonly employed to allow one of the arms of a interferometer to interact with an analyte via a waveguide’s evanescent field.
In this draft design, two devices were chosen. The first is a simple MZI with different path length differences ΔL. An explanation of a MZI operation is thus presented. The second device is a basic filter based on two cascaded interferometers. Also, the basic theory of a lossless two stage MZI filter is presented. Here in this report simulations in terms of optical component and circuit device are shown, which later on will be compared with experimental results after device fabrication.
Dissertation Proposal: Molecular Insight into How Nanocrystals are Grown to Specific Shapes
Research objective
A COMMON OPERATION METRICS FOR STORAGE RING LIGHT SOURCES
and 6 collaborators
Storage ring light sources aim for a high operation reliability. Very often the beam availability is used as the operation metrics to measure the reliability of the accelerator. A survey of several light sources revealed that the calculation of this statistics varies significantly between the facilities. This prevents a useful comparison of their reliabilities. The authors propose a specific metrics for the reliability of storage ring light sources; a metrics that will allow a detailed and meaningful comparison of these particle accelerators.
Precise gene expression patterns in complex neuronal morphologies from a simple local mechanism
and 4 collaborators
The spatial distribution of macromolecules and organelles in neurons is highly nonuniform. How cells achieve and maintain these expression patterns is unknown, but is believed to involve microtubular-based transport. Using mathematical analysis and numerical simulation, we show how reliable transport systems can be implemented in complex neuron morphologies. We derive a simple rule that relates local trafficking rates to the global steady-state distribution of cargo, and illustrate how this rule can be encoded by a second-messenger molecule, such as Ca2+. Similar, but more flexible, transport strategies were developed for a model that included nonuniform activation or microtubular detachment of cargo. These models make several experimental predictions about the time scale of transport and cell-to-cell variability in spatial expression patterns. We illustrate these predictions in CA1 pyramidal cells, which rely on transport of activity-inducible mRNAs and proteins for long-lasting synaptic plasticity, and display linear expression gradients in HCN and potassium channels.
Rio Pongaiola
RIO PONGAIOLA
Maria Dal Barco (157831)
Camilla Zanetti (155019)
Negli allegati sono presenti:
la cartella Rio Pongaiola contenente il file .pdf della relazione;
la cartella Mappe contenente a sua volta le .zip degli output ricavati tramite il programma Stage per completare l’analisi idrogeomorfologica del torrente Rio Pongaiola;
la cartella Distribuzioni contenente i file .txt degli output ricavati tramite Stage e i comandi utilizzati per creare le distribuzioni in R;
la cartella GEOTiff contenente le mappe georeferenziate mediante il programma Qgis.
Nella cartella Mappe sono presenti il DTM, il vettoriale dei FIUMI, il .PRJ e la Location (contenente i vettoriali vettoriali e le mappe raster ricavati tramite il programma Stage).
Di tutte le mappe raster si vogliono distinguere quelle dell’intero DTM scaricato dal Web Server della Facoltà di Ingegneria di Trento (es. TC3Classi), quelle ricavate a seguito del comando CutOut sempre in Stage (es. TC3ClassiCutOut) e quelle seguendo il secondo metodo (es. TC3Classi1), con il quale è stata completata l’analisi idrogeomorfologica.
Poichè questa piattaforma non permette di caricare file di dimensioni maggiori ai 10Mb, seppur “zippati” alcuni file risultano ugualmente troppo pesanti:
- cartella GEOTiff
TopIndex.zip
Curvatures_Planar.zip
Curvatures_Tangential.zip
Curvatures_Longitudinal.zip
- cartella Mappe -> Mapset -> fcell
IndiceTopografico
PlanarCurvatures
TangentialNormalCurvatures
ProfileLongitudinalCurvatures
SlopeMapGradient
Esposizione
Genoa C.F.C.
Genoa Cricket and Football Club, commonly referred to simply as Genoa (Italian pronunciation: [ˈd͡ʒɛːnoa]), is a professional Italian football and cricket club based in the city of Genoa, Liguria.
During their long history, Genoa have won the Serie A nine times. Genoa’s first title came at the inaugural championship in 1898 and their last was in 1923–24. They also won the Coppa Italia once. Historically, Genoa is the fourth most successful Italian club in terms of championships won.[4]
This slew of early successes may lie at the origin of the love professed for the team by the godfather of Italian sports journalists Gianni Brera (1919–1992), who, despite having been born nowhere near Genoa,
always declare
d himself a supporter of the team. Brera went as far as creating the nickname Vecchio Balordo (Old Fool or Cranky Old One) for Genoa.
The club has played its home games at the 36,536 capacity Stadio Luigi Ferraris[5] since 1911. Since 1946, the ground has been shared with local rivals Sampdoria. Genoa has spent most of its post-war history going up and down between Serie A and Serie B, with two brief spells in Serie C.
Curriculum Vitae: Alyssa A. Goodman
Alyssa A. Goodman
Astronomy Department, Harvard University, Cambridge, MA 02138, (617) 495–9278
485 Concord Avenue, Lexington, MA 02421
July 1, 1962/New York, New York
Kirrobacter mercurialis gen. nov., sp. nov., a member of the Erythrobacteraceae family isolated from a stadium seat
and 5 collaborators
Abstract
A novel, Gram-negative, non-spore-forming, pleomorphic yellow-orange bacterial strain was isolated from a stadium seat. Strain Coronado(T) falls within the Erythrobacteraceae family based on 16S rRNA phylogenetic analysis, but is both phylogenetically and physiologically distinct from existing genera in the family. A phylogenetic tree inferred from 16S rRNA gene sequences shows a highly supported clade containing Coronado(T), Porphyrobacter, Erythromicrobium, and Erythrobacter. While this strain has Q-10 as the predominant respiratory lipoquinone, as do other members of the family, the fatty acid profile of this strain is distinct. Coronado(T) contains predominatly C18:1ω7cis and C16:0, a high percentage of the latter not being observed in any other Erythrobacteraceae. This strain is catalase-positive and oxidase-negative, the latter of which is unusual for the other genera present in the same clade. Coronado(T) can grow from 4-28°C, at NaCl concentrations 0.1-1.5%, and at pH 6.0-8.0. On the basis of phenotypic and phylogenetic data presented in this study, strain Coronado(T) represents a novel species in a new genus in the family Erythrobacteraceae for which the name Kirrobacter mercurialis gen. nov., sp. nov. is proposed; the type strain is Coronado(T) (=DSMZ 29971, =LMG 28700).
Welcome to Authorea!
Hey, welcome. Double click anywhere on the text to start writing. In addition to simple text you can also add text formatted in boldface, italic, and yes, math too: E = mc2! Add images by drag’n’drop or click on the “Insert Figure” button.
Relazione Rio Val de Fora
Michele Bonazzi 158767
Alessandro Formigari 160132
Abbiamo caricato la relazione in pdf “Idrologia.compressed.pdf” e l’intera location.
Le cartelle “Vettoriali” e “cellmisc” sono state caricate sotto forma di file .zip.
Si precisa che le mappe vettoriali sono in formato .shp.
Il sistema di riferimento utilizzato è WGS84 e la proiezione è UTM32N, codice EPSG 32632.
xii.tex
Source: http://ctan.org/pkg/xii
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Assessment of therapeutic benefits of targeted dose enhancement in radiotherapy with gold nano-particles: a treatment planning study
and 2 collaborators
In recent years there has been considerable interest on the use of gold nanoparticles (GNPs) as novel agents for cancer therapy, with many studies in diverse fields including preclinical and clinical trials \cite{Zhang_2008,Rahman_2009,Cao_Mil_n_2014}. In particular, the use of GNPs showed promising results for cancerous cells radiosensitization at both kilo- and mega-voltage energies \cite{Hainfeld_2004,Kong_2008,Rahman_2009,Jain_2011}.
As the concentration of nanoparticles increases the radiosensitization increases \cite{Rahman_2009, Ranjbar_2010, Brun_2009}, both due to the higher number of photoelectric interactions, and consequently higher dose deposition, and to the additional oxidative stress induced by the presence of nanoparticles \cite{Pan_2009,Kang_2010}. Experimental studies have revealed that GNPs radiosensitization is also highly sensitive to photon source energy \cite{Chithrani_2010}, cancer cell type \cite{Patra_2007,Jain_2011}, nanoparticle size \cite{Butterworth_2012} and localization relative to cellular DNA \cite{Brun_2009}.
The premise of GNPs radiosensitization relies on the higher photoelectric absorption cross-section of gold relative to tissues. The high radiosensitization induced at kilovoltage energies by GNPs is well documented by both in vitro and in vivo studies (mice with implanted tumors) \cite{Hainfeld_2004, Kong_2008, Rahman_2009, Jain_2012}. However, the radiosensitization observed at kilovoltage energies by increased photoabsorption cannot help predict the effects occurring at clinically relevant megavoltage energies, where Compton interactions are dominant and photon energy absorption weakly depends on the atomic number. Ionization rates at megavoltage energies seem to be extremely low, meaning that, for doses typically used in radiotherapy, a fair amount of nanoparticles present in the system (i.e., more than 99% \cite{McMahon_2011}) does not contribute to the dose deposition processes. Despite this minimal dose increase, it is was observed that GNPs could lead to significant levels of radiosensitization when irradiated with MV photons \cite{Jain_2011}.
Even for kV photons, the observed dose enhancement factor (DEF) cannot be completely justified only by the higher attenuation cross-section of gold relative to tissues (see for example \cite{Rahman_2009}), and other mechanisms in addition to the strong photoelectric absorption have to be considered, such as different distributions of energy deposition at the nanometric scale, compared to those in tissues without GNPs \cite{McMahon_2011,Butterworth_2012}, and/or additional oxidative stress induced by the nanoparticles presence \cite{Pan_2009,Kang_2010}.
Additional studies are essential in order to understand the underlying processes of radiosensitization so as to use GNPs as a clinical therapeutic tool. In particular, the full mechanism under radiosensitization in radiotherapy still needs to be investigated in a patient-like geometry. Of note, the efficacy of a treatment depends on the nanoparticles concentration and spatial distribution in the tumor cells, as well as on the incident beam energy and delivered dose.
When metallic nanoparticles are localized in the tumor a greater fraction of the incident photon energy can be imparted to it without escalating the damage to the surrounding healthy tissues. Since GNPs are easily synthesized and can be designed to interact with various biomolecules, improved diagnosis and treatments efficacy can be obtained by using labeled nanoparticles that target specific cell receptors. That is, it is expected that nanoparticles bound to targeting agents should accumulate in higher concentrations in the tumor than in other organs, therefore amplifying the dose release in the cancerous cells while keeping constrained the cellular damage in the surrounding healthy tissues. So far, GNPs uptake has been found to be highest when bound to sugars \cite{Kong_2008} and peptides \cite{Kim_2011}. It was also observed that, even in the absence of any surface modification, nanoparticles are able to passively accumulate in cancerous cells due to the enhanced permeability and retention effect (EPR) \cite{Maeda_2000} of the abnormal tumor microvasculature \cite{Dudley_2011}. The combined effects of the intrinsic passive targeting (EPR) with the actual functionalization of the particle surface providing active targeting highly improves GNPs concentration inside the tumor volume.
In this paper, a radiobiological model is introduced to investigate the mechanisms underlying radiosensitization. The model, benchmarked with in vitro data taken from the literature, was included in the simulations of breast cancer IMRT treatments, with both 6 and 15 MV photons. In these simulations different uptake scenarios were also modeled to quantify the expected effectiveness of radiotherapy treatments with GNPs targeted dose enhancement.
Lab Meeting - Stastical Physics Laboratory in UOS
and 4 collaborators
2015.03.10. MN
General three-state model with biased population replacement: Analytical solution and application to language dynamics [PRE 91, 012808(2015)]
(Francesca Colaiori, Claudio Castellano, Christine F. Cuskley, Vittorio Loreto, Martina Pugliese, Francesca Tria) \cite{Colaiori_2015}
2015.02.03. MN
A universal transition in the robustness of evolving open systems [Sci. Rep. 4, 4082 (2014)]
(T. Shimada) \cite{Shimada_2014}
2014.12.09. JM
Nonequilibrium statistical mechanics of two-temperature Ising ring with conserved dynamics [Phys. Rev. E 90, 062113 (2014)]
(N. Borchers, M. Pleimling, R. K. P. Zia) \cite{Borchers_2014}
2014.12.02. PS
Giant components in directed multiplex networks [Phys. Rev. E 90, 052809 (2014)]
(N. Azimi-Tafreshi, S. N. Dorogovtsev, J. F. F. Mendes) \cite{Azimi_Tafreshi_2014}
2014.11.25. HM
General achievable bound of extractable work under feedback control [Phys. Rev. E 90, 052125 (2014)]
(Y. Ashida, K. Funo, Y. Murashita, M. Ueda) \cite{Ashida_2014}
2014.11.11. JM
High-Precision Test of Landauer’s Principle in a Feedback Trap [Phys. Rev. Lett. 113, 190601 (2014)]
(Y. Jun, M. Gavrilov, J. Bechhoefer) \cite{Jun_2014}
2014.11.04. PS
Local and global epidemic outbreaks in populations moving in inhomogeneous environments [Phys. Rev. E 90, 042813 (2014)]
(A. Buscarino, L. Fortuna, M. Frasca, A. Rizzo) \cite{Buscarino_2014}
2014.10.28. MN
Easily Repairable Networks: Reconnecting Nodes after Damage [Phys. Rev. Lett. 113, 138701 (2014)]
(R. S. Farr, J. L. Harer, T. M. A. Fink) \cite{Farr_2014}
2014.10.21. HM
Mean first-passage time for maximal-entropy random walks in complex networks [Sci. Rep. 4, 5365 (2014)]
(Y. Lin, Z. Zhang) \cite{Lin_2014}
2014.10.07. PS
Effect of individual behavior on epidemic spreading in activity-driven networks [Phys. Rev. E 90, 042801 (2014)]
(A. Rizzo, M. Frasca, M. Porfiri) \cite{Rizzo_2014}
2014.09.30. MN
Effect of diffusion in one-dimensional discontinuous absorbing phase transitions [Phys. Rev. E 90, 032123 (2014)]
(C. E. Fiore, G. T. Landi) \cite{Fiore_2014}
2014.09.23. JM
Experimental Observation of the Role of Mutual Information in the Nonequilibrium Dynamics of a Maxwell Demon [Phys. Rev. Lett. 113, 030601 (2014)]
(J. V. Koski, V. F. Maisi, T. Sagawa) \cite{Koski_2014}
2014.09.16. PS
Critical exponents of the explosive percolation transition [Phys. Rev. E 89, 042148 (2014)]
(R. A. da Costa, S. N. Dorogovtsev, A. V. Goltsev, J. F. F. Mendes) \cite{da_Costa_2014}
2014.09.02. MN
Optimal Network Modularity for Information Diffusion [Phys. Rev. Lett. 113, 088701 (2014)]
(A. Nematzadeh, E. Ferrara, A. Flammini, Y. Ahn) \cite{Nematzadeh_2014}
2014.06.09. PS
Percolation threshold on planar Euclidean Gabriel Graphs[arXiv:1406.0663 (2014)]
(C. Norrenbrock) (arXiv:1406.0663)
2014.06.09. JM
Optimized finite-time information machine [J. Stat. Mech. 2014, P09010 (2014)]
(M. Bauer, A. C. Barato, U. Seifert) \cite{Bauer_2014}
2014.06.02. MN
Universal hierarchical behavior of citation networks [J. Stat. Mech. 2014, P05023 (2014)]
(E. Mones, P. Pollner, T. Vicsek) \cite{Mones_2014},
Hierarchy Measure for Complex Networks[PLoS One, 7, e33799 (2012)]
(E. Mones, L. Vicsek, T. Vicsek) \cite{Mones_2012}
2014.06.02. HM
The unlikely Carnot efficiency [Nat. Comm. 5, 4721 (2014)]
(G. Verley, M. Esposito, T. Willaert, C. Van den Broeck) \cite{Verley_2014}
2014.05.26. PS
Percolation in the classical blockmodel[Eur. Phys. J. B 87, 212 (2014)]
(M. Bujok, P. Fronczak, A. Fronczak) \cite{Bujok_2014}
2014.05.26. JM
Nonequilibrium Statistical Mechanics for Adiabatic Piston Problem [J. Stat. Phys. 158, 37 (2014)]
(M. Itami, S. Sasa) \cite{Itami_2014}
2014.05.19. MN
Explore or Exploit? A Generic Model and an Exactly Solvable Case [Phys. Rev. Lett. 112, 050602 (2014)]
(T. Gueudré, A. Dobrinevski, J. Bouchaud) \cite{Gueudr__2014}
2014.05.19. HM
Fluctuation Theorem for Partially-masked Nonequilibrium Dynamics [Phys. Rev. E 91, 012130 (2015)]
(N. Shiraishi, T. Sagawa) \cite{Shiraishi_2015}
2014.05.12. PS
k-core percolation on multiplex networks [Phys. Rev. E 90, 032816 (2014)]
(N. Azimi-Tafreshi, J. Gómez-Gardeñes, S. N. Dorogovtsev) \cite{Azimi_Tafreshi_2014}
2014.05.12. JM
Accuracy of energy measurement and reversible operation of a microcanonical Szilard engine [Phys. Rev. E 89, 042120 (2014)]
(J. Bergli) \cite{Bergli_2014}
2014.04.30. MN
Is the Voter Model a Model for Voters? [Phys. Rev. Lett. 112, 158701 (2014)]
(J. Fernández-Gracia, K. Suchecki, J. J. Ramasco, M. S. Miguel, V. M. Eguíluz) \cite{Fern_ndez_Gracia_2014}
2014.04.14. PS
Enhanced Flow in Small-World Networks [Phys. Rev. Lett. 112, 148701 (2014)]
(C. L. N. Oliveira, P. A. Morais, A. A. Moreira, J. S. Andrade) \cite{Oliveira_2014}
2014.04.14. HM
Entropic memory erasure [Phys. Rev. E 89, 032130 (2014)]
(M. Das) \cite{Das_2014}
2014.04.07. MN
Promoting collective motion of self-propelled agents by distance-based influence [Phys. Rev. E 89, 032813 (2014)]
(H. Yang, T. Zhou, L. Huang) \cite{Yang_2014}
2014.04.07. JM
Gibbs, Boltzmann, and negative temperatures [Am. J. Phys. 83, 163 (2015)]
(D. Frenkel, P. B. Warren) \cite{Frenkel_2015}
2014.03.31. PS
Controlling Contagion Processes in Activity Driven Networks [Phys. Rev. Lett. 112, 118702 (2014)]
(S. Liu, N. Perra, M. Karsai, A. Vespignani) \cite{Liu_2014}
2014.03.31. MN
Robustness of a partially interdependent network formed of clustered networks [Phys. Rev. E 89, 032812 (2014)]
(S. Shao, X. Huang, H. Eugene Stanley, S. Havlin) \cite{Shao_2014}
2014.03.31. HM
Random walks with preferential relocation to place visited in the past and their application to biology [Phys. Rev. Lett. 112, 240601 (2014)]
(D. Boyer, C. Solis-Salas) \cite{Boyer_2014}
2014.03.31. JM
Local non-equilibrium thermodynamics [Sci. Rep. 5, 7832 (2015)]
(J. Lee, H. Tanaka) \cite{Jinwoo_2015}
2014.03.24. PS
Origin of Peer Influence in Social Networks [Phys. Rev. Lett. 112, 098702 (2014)]
(F. L. Pinheiro, M. D. Santos, F. C. Santos, J. M. Pacheco) \cite{Pinheiro_2014}
2014.03.24. MN
Rewiring the network. What helps an innovation to diffuse? [J. Stat. Mech. 2014, P03007 (2014)]
(K. Sznajd-Weron, J. Szwabiński, R. Weron, T. Weron) \cite{Sznajd_Weron_2014}
2014.03.24. HM
Computation of Large Deviation Statistics via Iterative Measurement-and-Feedback Procedure [Phys. Rev. Lett. 112, 090602 (2014)]
(T. Nemoto, S. Sasa) \cite{Nemoto_2014}
2014.03.24. JM
Fluctuation in partitioning systems with few degrees of freedom [Phys. Rev. E 89, 042105 (2014)]
(L. Cerino, G. Gradenigo, A. Sarracino, D. Villamaina, A. Vulpiani) \cite{Cerino_2014}
2014.03.17. PS
Ordinary Percolation with Discontinuous Transitions [Nat. Comm. 3, 787 (2012)] (S. Boettcher, V. Singh, R. M. Ziff) \cite{Boettcher_2012}
2014.03.17. HM
Unifying Three Perspectives on Information Processing in Stochastic Thermodynamics [Phys. Rev. Lett. 112, 090601 (2014)]
(A. C. Barato, U. Seifert) \cite{Barato_2014}
2014.03.17. JM
Time reversibility and nonequilibrium thermodynamics of second-order stochastic processes [Phys. Rev. E 89, 022127 (2014)]
(H. Ge) \cite{Ge_2014}
2014.03.10. PS
Model versions and fast algorithms for network epidemiology [arXiv:1403.1011 (2014)]
(P. Holme) (arXiv:1403.1011)
2014.03.10. MN
Shock waves on complex networks [Sci. Rep. 4, 4949 (2014)]
(E. Mones, N. A. M. Araújo, T. Vicsek, H. J. Herrmann) \cite{Mones_2014}
2014.03.10. JM
Stochastic thermodynamics of bipartite systems [J. Stat. Mech. 2014, P02016 (2014)]
(D. Hartich, A. C. Barato, U. Seifert) \cite{Hartich_2014}
2014.02.27. PS
Minimal mechanism leading to discontinuous phase transitions for short-range systems with absorbing states [Phys. Rev. E 89, 022104 (2014)]
(C. E. Fiore) \cite{Fiore_2014}
2014.02.27. HM
Langevin dynamics in inhomogeneous media : Re-examining the Ito-Stratonovich dilemma [Phys. Rev. E 89, 013301 (2014)]
(O. Farago, N. Grønbech-Jensen) \cite{Farago_2014}
2014.02.27. JM
Stochastic functionals and fluctuation theorem for multikangaroo processes [Phys. Rev. E 89, 062124 (2014)]
(C. Van den Broeck, R. Toral) \cite{Van_den_Broeck_2014}
2014.02.14. PS
Anomalous discontinuity at the percolation critical point of active gels [Phys. Rev. Lett. 114, 098104 (2015)]
(M. Sheinman, A. Sharma, J. Alvarado, G. H. Koenderink) \cite{Sheinman_2015}
2014.02.14. MN
Spatiotemporally Complete Condensation in a Non-Poissonian Exclusion Process [Phys. Rev. Lett. 112, 050603 (2014)]
(R. J. Concannon, R. A. Blythe) \cite{Concannon_2014}
2014.02.14. HM
Characteristic times of biased random walks on complex networks [Phys. Rev. E 89, 012803 (2014)]
(M. Bonaventura, V. Nicosia, V. Latora) \cite{Bonaventura_2014}
2014.02.14. JM
Thermodynamic feature of a Brownian heat engine operating between two heat baths [Phys. Rev. E 89, 012143 (2014)]
(M. Asfaw) \cite{Asfaw_2014}
2014.02.06. PS
Double percolation phase transition in clustered complex networks [Phys. Rev. X 4, 041020 (2014)]
(P. Colomer-de-Simón, M. Boguñá) \cite{Colomer_de_Sim_n_2014}
2014.02.06. MN
Dynamics of interacting information waves in networks [Phys. Rev. E 89, 012809 (2014)]
(A. Mirshahvalad, A. V. Esquivel, L. Lizana, M. Rosvall) \cite{Mirshahvalad_2014}
2014.02.06. HM
Large deviation function and fluctuation theorem for classical particle transport [Phys. Rev. E 89, 012141 (2014)]
(U. Harbola, C. Van den Broeck) \cite{Harbola_2014}
2014.02.06. JM
Fluctuation theorems without time-reversal symmetry [Int. J. Mod. Phys. B 28, 1430003 (2014)]
(C. Wang, D. E. Feldman) \cite{WANG_2014}
2014.01.16. PS
Spontaneous recovery in dynamical networks [Nat. Phys. 10, 34 (2013)]
(A. Majdandzic, B. Podobnik, S. V. Buldyrev, D. Y. Kenett, S. Havlin, H. Eugene Stanley) \cite{Majdandzic_2013}
2014.01.16. MN
Choice-Driven Phase Transition in Compelx Networks [J. Stat. Mech. 2014, P04021 (2014)]
(P. L. Krapivsky, S. Redner) \cite{Krapivsky_2014}
2013.12.18. HM
Nonequilibrium Langevin equation and effective temperature for particle interacting with spatially extended environment [arXiv:1311.7464 (2013)]
(T. Haga) (arXiv:1311.7464)
2013.12.18. JM
Weak-noise limit of a piecewise-smooth stochastic differential equation [Phys. Rev. E 88, 052103 (2013)]
(Y. Chen, A. Baule, H. Touchette, W. Just) \cite{Chen_2013}
2013.12.11. PS
Highly dispersed networks by enhanced redirection [Phys. Rev. E 88, 050802 (2013)]
(A. Gabel, P. L. Krapivsky, S. Redner) \cite{Gabel_2013}
2013.12.11. MN
The blind watchmaker network: scale-freeness and evolution [PLoS ONE 3, e1690 (2008)]
(P. Minnhagen, S. Bernhardsson) \cite{Minnhagen_2008},
Zipf’s law unzipped [New J. Phys. 13, 043004 (2011)]
(S. Baek, S. Bernhardsson, P. Minnhagen) \cite{Baek_2011}
2013.11.27. PS
Triple point in correlated interdependent networks [Phys. Rev. E, 88, 050803 (2013)]
(L. D. Valdez, P. A. Macri, H. E. Stanley, L. A. Braunstein) \cite{Valdez_2013}
2013.11.27. MN
A thermostatistical approach to scale-free networks [arXiv:1311.4075 (2013)]
(J. P. da Cruz, N. A.M. Araújo, F. Raischel, P. G. Lind) (arXiv:1311.4075)
2013.11.27. HM
Entropy-generated power and its efficiency [Phys. Rev. E 88, 042115 (2013)]
(N. Golubeva, A. Imparato, M. Esposito) \cite{Golubeva_2013}
2013.11.27. JM
Statistical properties of the energy exchanged between two heat baths coupled by thermal fluctuations [arXiv:1311.4189 (2013)]
(S. Ciliberto, A. Imparato, A. Naert, M. Tanase) (arXiv:1311.4189)
2013.11.20. PS
Robustness of cooperation on scale-free networks under continuous topological change [Phys. Rev. E 88, 052808 (2013)]
(G. Ichinose, Y. Tenguishi, T. Tanizawa) \cite{Ichinose_2013}
2013.11.20. MN
Voter models with contrarian agents [Phys. Rev. E 88, 052803 (2013)]
(N. Masuda) \cite{Masuda_2013}
2013.11.20. HM
Time asymmetry of the Kramers equation with nonlinear friction: fluctuation-dissipation relation and ratchet effect [Phys. Rev. E 88, 052124 (2013)]
(A. Sarracino) \cite{Sarracino_2013}
2013.11.20. JM
Microcanonical work and fluctuation relations for an open system: An exactly solvable model [Phys. Rev. E 88, 042136 (2013)]
(Y. Subaşı, C. Jarzynski) \cite{Suba__2013}
2013.11.13. PS
Profile and scaling of the fractal exponent of percolation in complex networks [Eur. Phys. Lett. 104, 16006 (2013)]
(T. Hasegawa, T. Nogawa, K. Nemoto) \cite{Hasegawa_2013}
2013.11.13. MN
Loss of Collective Motion in Swarming Bacteria Undergoing Stress [Phys. Rev. Lett. 111, 208101 (2013)]
(S. Lu, W. Bi, F. Liu, X. Wu, B. Xing, E. K. L. Yeow) \cite{Lu_2013}
2013.11.13. HM
Thermoynamic and Logical Reversibilities Revisitied [J. Stat. Mech. 2014, P03025 (2014)]
(T. Sagawa) \cite{Sagawa_2014}
2013.11.13. JM
Information Thermodynamics on Causal Networks [Phys. Rev. Lett. 111, 180603 (2013)]
(S. Ito, T. Sagawa) \cite{Ito_2013}
2013.11.06. PS
Phase Transitions in Models of Bird Flocking [arXiv:1309.6377 (2013)]
(H. Christodoulidi, K. van der Weele, Ch.G. Antonopoulos, T. Bountis) (arXiv:1309.6377)
2013.11.06. MN
Opportunistic migration in spatial evolutionary games [Phys. Rev. E 88, 042806 (2013)]
(P. Buesser, M. Tomassini, A. Antonioni) \cite{Buesser_2013}
2013.11.06. HM
Thermodynamic forces generated by hidden pumps [arXiv:1310.2987 (2013)]
(M. Esposito, J. MR Parrondo) (arXiv:1310.2987)
2013.11.06. JM
Generalized integral fluctuation relation with feedback control for diffusion processes [Comm. Theor. Phys. 62, 571 (2014)]
(F. Liu, H. Xie, Z. Lu) \cite{Liu_2014}
2013.10.25. PS
Abrupt transition in the structural formation of interconnected networks, [Nat. Phys. 9, 717 (2013)]
(F. Radicchi, A. Arenas) \cite{Radicchi_2013}
2013.10.25. MN
Consensus time and conformity in the adaptive voter model [Phys. Rev. E 88, 030102 (2013)]
(T. Rogers, T. Gross) \cite{Rogers_2013}
2013.10.25. HM
Fourier’s law from a chain of coupled planar harmonic oscillators under energy conserving noise [arXiv:1309.6560 (2013)]
(G. T. Landi, M. J. de Oliveira) (arXiv:1309.6560)
2013.10.25. JM
Perpetual extraction of work from a nonequilibrium dynamical system under Markovian feedback control [Phys. Rev. E 88, 032144 (2013)]
(T. Kosugi) \cite{Kosugi_2013}
2013.10.11. PS
Growth dominates choice in network percolation [Phys. Rev. E 88, 032141(2013)]
(V. S. Vijayaraghavan, P. Noël, A. Waagen, R. M. D’Souza) \cite{Vijayaraghavan_2013}
2013.10.11. HM
The overdamped limit for the Brownian motion in an inhomogeneous medium [arXiv:1309.5750 (2013)]
(Xavier Durang, Chulan Kwon, Hyunggyu Park) (arXiv:1309.5750)
2013.10.11. JM
Roles of Dry Friction in Fluctuating Motion of Adiabatic Piston [Phys. Rev. E 89, 032104 (2014)]
(T. G. Sano, H. Hayakawa) \cite{Sano_2014}
2013.10.02. PS
Dynamical Interplay between Awareness and Epidemic Spreading in Multiplex Networks [Phys. Rev. Lett. 111, 128701 (2013)]
(C. Granell, S. Gómez, A. Arenas) \cite{Granell_2013}
2013.10.02. MN
Opinion dynamics model with weighted influence: Exit probability and dynamics [Phys. Rev. E 88, 022152 (2013)]
(S. Biswas, S. Sinha, P. Sen) \cite{Biswas_2013}
2013.10.02. HM
Entropy production in continuous phase space systems [J. Stat. Phys. 153, 828 (2013)]
(D. Luposchainsky, H. Hinrichsen) \cite{Luposchainsky_2013}
2013.10.02. JM
Transport-induced correlations in weakly interacting systems [J. Stat. Mech. 2013, P08015 (2013)]
(G. Bunin, Y. Kafri, V. Lecomte, D. Podolsky and A. Polkovnikov) \cite{Bunin_2013}
DFG-Proposal
Project Description
Here comes the state of the art. First paper that is relevant \cite{25912046}, a second one \cite{24343243}, and another one (bibtex import) \cite{Feuda:2015ew}
here own publications
not applicable
GaN Nanowire Review
Nanowires are one of the fastest growing areas of study in the last decade due to their unique electronic, physical, and chemical properties. Gallium nitride is a semiconducting material that has been used in industry and research for its large bandgap, piezoelectric properties, and strength. By utilizing nanofabrication techniques, gallium nitride nanowires have been utilized to develop next generation catalysts, probes, and electronics. This paper reviews the most recent developments in both efficient synthesis of gallium nitride nanowires as well as novel and optimized devices that utilize gallium nitride. The current trend in devices is the incorporation of various organic and inorganic materials for their synergistic effects.
Hundreds of various synthetic methods and devices have been developed for nanowires in the last decade. Gallium nitride (GaN) has also garnered attention due to its simple synthesis as well as functionality as a wide-bandgap semiconductor. As the most basic synthesis research has been completed and streamlined for GaN nanowires, functional devices on the nanoscale have also been developed: sensors, photovoltaics, probes, LEDs, and lasers. The most recent research done on GaN nanowires focuses on the utilization of the nanowire’s physical structure as well as augmentation with other materials in order to create both unique and efficient devices. Of course, these devices would not be possible if it were not for newer synthetic methods that simply the production of high-quality GaN nanowires.
One of the most commonly utilized and well-developed synthesis methods used to create nanowires is VLS, a method that has proven to be both simple and efficient in not only the growth of singular nanowires, but also large arrays of nanowires.\cite{Suo_2014} VLS utilizes a unique chemical reaction between the two feed gases that introduce gallium and nitrogen (usually ammonia) into the reaction chamber. At the same time, a nonreactive carrier gas, such as nitrogen or argon, is pumped into the reaction chamber along with a small amount of hydrogen gas. Once at a nucleation point designated by a metal powder catalyst, the gallium-containing vapor forms a liquid droplet of gallium and partially oxidizes into Ga2O3. The equilibrium between liquid gallium and Ga2O3 is controlled by the hydrogen gas. At the same time, the liquid gallium layer also cracks the ammonia gas to produce more hydrogen and to allow the nitrogen to react with the liquid gallium and allow GaN nanowires to crystallize.\cite{Chen_2000}
In 2000, Chen et al. report a method they utilized to create a large mass of nanowires by using an iridium powder catalyst to accelerate the reaction between gallium and ammonia gas. A liquid droplet containing iridium, gallium, and nitrogen served as the nucleation point for the nanowires. These sites were produced while the reaction chamber was heated, and the nanowires grew outwards as the liquid droplet remained on top of the nanowire itself. Although initially growing independently from one another, the nanowires became entangled into a large mesh as they grew longer.
Though highly efficient, this method resulted in the growth of nanowires with diameters from 20 – 50 nm. This is not the best specificity, especially since the synthesis does not allow for diameter control: at the quantum level, the effects of size discrepancies may result in highly different properties. Another major issue with VLS is the usage of metal powder catalysts, as they may become infused into or coated upon the nanowire, changing the physical and electronic characteristics of the final product. Therefore, though VLS may be able to create a large array of entangled GaN nanowires, its low specificity prevents it from being used for more delicate applications such as computer chips. The major challenges with VLS synthesis include creating aligned nanowires as well as prevention of unintended doping of the nanowire by leftover catalysts. \cite{Chen_2000}
On the other hand, the purposeful doping of GaN nanowires with magnesium has also been a unique alternative explored in a synthetic technique published by the Patsha group in 2014. The amount of magnesium that was deposited upon the nanowires was controlled by varying the distance of the Mg3N2 source from the substrate. The nanowires had diameters of around 60 nanometers as well as lengths of hundreds of nanometers. Further analysis by x-ray spectrometry confirmed the successful integration of magnesium into the nanowires. \cite{Patsha_2014}