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1.  Scalp acupuncture and electromagnetic convergence stimulation for patients with cerebral infarction: study protocol for a randomized controlled trial 
Trials  2016;17:490.
Background
Scalp acupuncture (SA) and repetitive transcranial magnetic stimulation (rTMS) are effective for treating cerebral infarction. This study aims to examine the efficacy and safety of SA and electromagnetic convergence stimulation (SAEM-CS), which was developed through collaboration between conventional medical physicians and doctors who practice traditional Korean medicine. SAEM-CS was designed to improve function in patients with cerebral infarction, compared to the improvement after conventional stroke rehabilitation, SA, and rTMS therapeutic approaches.
Methods/design
This study is a prospective, outcome assessor-blinded, randomized controlled clinical trial with a 1:1:1:1 allocation ratio. Participants with motion or sensory disabilities caused by a first-time cerebral infarction (n = 60) that had occurred within 1 month of the study onset will be randomly assigned to control, SA, rTMS, or SAEM-CS groups. All groups will receive two sessions of conventional rehabilitation treatment per day. The SA group will receive SA on the upper limb area of MS6 and MS7 (at the lesional hemisphere) for 20 min, the rTMS group will receive low-frequency rTMS (LF-rTMS) treatment on the hot spot of the M1 region (motor cortex at the contralesional hemisphere) for 20 min, and the SAEM-CS group will receive LF-rTMS over the contralesional M1 region hot spot while receiving simultaneous SA stimulation on the lesional upper limb area of MS6 and MS7 for 20 min. SA, rTMS, and SAEM-CS treatments will be conducted once/day, 5 days/week (excluding Saturdays and Sundays) for 3 weeks, for a total of 15 sessions. The primary outcome will be evaluated using the Fugl‐Meyer Assessment, while other scales assessing cognitive function, activities of daily living, walking, quality of life, and stroke severity are considered secondary outcome measures. Outcome measurements will be conducted at baseline (before intervention), 3 weeks after the first intervention (end of intervention), and 4 weeks after intervention completion.
Discussion
This study aims to explore the efficacy and safety of SAEM-CS on cerebral infarction. Collaborative research combined traditional Korean and conventional medicines, which can be useful in developing new treatment technologies.
Trial registration
KCT0001768. Registered on 14 January 2016.
Electronic supplementary material
The online version of this article (doi:10.1186/s13063-016-1611-y) contains supplementary material, which is available to authorized users.
doi:10.1186/s13063-016-1611-y
PMCID: PMC5057263  PMID: 27724972
Cerebral infarction; Scalp acupuncture; Repetitive transcranial magnetic stimulation; Collaborative study; Randomized controlled trial; Study protocol
2.  25th Annual Computational Neuroscience Meeting: CNS-2016 
Sharpee, Tatyana O. | Destexhe, Alain | Kawato, Mitsuo | Sekulić, Vladislav | Skinner, Frances K. | Wójcik, Daniel K. | Chintaluri, Chaitanya | Cserpán, Dorottya | Somogyvári, Zoltán | Kim, Jae Kyoung | Kilpatrick, Zachary P. | Bennett, Matthew R. | Josić, Kresimir | Elices, Irene | Arroyo, David | Levi, Rafael | Rodriguez, Francisco B. | Varona, Pablo | Hwang, Eunjin | Kim, Bowon | Han, Hio-Been | Kim, Tae | McKenna, James T. | Brown, Ritchie E. | McCarley, Robert W. | Choi, Jee Hyun | Rankin, James | Popp, Pamela Osborn | Rinzel, John | Tabas, Alejandro | Rupp, André | Balaguer-Ballester, Emili | Maturana, Matias I. | Grayden, David B. | Cloherty, Shaun L. | Kameneva, Tatiana | Ibbotson, Michael R. | Meffin, Hamish | Koren, Veronika | Lochmann, Timm | Dragoi, Valentin | Obermayer, Klaus | Psarrou, Maria | Schilstra, Maria | Davey, Neil | Torben-Nielsen, Benjamin | Steuber, Volker | Ju, Huiwen | Yu, Jiao | Hines, Michael L. | Chen, Liang | Yu, Yuguo | Kim, Jimin | Leahy, Will | Shlizerman, Eli | Birgiolas, Justas | Gerkin, Richard C. | Crook, Sharon M. | Viriyopase, Atthaphon | Memmesheimer, Raoul-Martin | Gielen, Stan | Dabaghian, Yuri | DeVito, Justin | Perotti, Luca | Kim, Anmo J. | Fenk, Lisa M. | Cheng, Cheng | Maimon, Gaby | Zhao, Chang | Widmer, Yves | Sprecher, Simon | Senn, Walter | Halnes, Geir | Mäki-Marttunen, Tuomo | Keller, Daniel | Pettersen, Klas H. | Andreassen, Ole A. | Einevoll, Gaute T. | Yamada, Yasunori | Steyn-Ross, Moira L. | Alistair Steyn-Ross, D. | Mejias, Jorge F. | Murray, John D. | Kennedy, Henry | Wang, Xiao-Jing | Kruscha, Alexandra | Grewe, Jan | Benda, Jan | Lindner, Benjamin | Badel, Laurent | Ohta, Kazumi | Tsuchimoto, Yoshiko | Kazama, Hokto | Kahng, B. | Tam, Nicoladie D. | Pollonini, Luca | Zouridakis, George | Soh, Jaehyun | Kim, DaeEun | Yoo, Minsu | Palmer, S. E. | Culmone, Viviana | Bojak, Ingo | Ferrario, Andrea | Merrison-Hort, Robert | Borisyuk, Roman | Kim, Chang Sub | Tezuka, Taro | Joo, Pangyu | Rho, Young-Ah | Burton, Shawn D. | Bard Ermentrout, G. | Jeong, Jaeseung | Urban, Nathaniel N. | Marsalek, Petr | Kim, Hoon-Hee | Moon, Seok-hyun | Lee, Do-won | Lee, Sung-beom | Lee, Ji-yong | Molkov, Yaroslav I. | Hamade, Khaldoun | Teka, Wondimu | Barnett, William H. | Kim, Taegyo | Markin, Sergey | Rybak, Ilya A. | Forro, Csaba | Dermutz, Harald | Demkó, László | Vörös, János | Babichev, Andrey | Huang, Haiping | Verduzco-Flores, Sergio | Dos Santos, Filipa | Andras, Peter | Metzner, Christoph | Schweikard, Achim | Zurowski, Bartosz | Roach, James P. | Sander, Leonard M. | Zochowski, Michal R. | Skilling, Quinton M. | Ognjanovski, Nicolette | Aton, Sara J. | Zochowski, Michal | Wang, Sheng-Jun | Ouyang, Guang | Guang, Jing | Zhang, Mingsha | Michael Wong, K. Y. | Zhou, Changsong | Robinson, Peter A. | Sanz-Leon, Paula | Drysdale, Peter M. | Fung, Felix | Abeysuriya, Romesh G. | Rennie, Chris J. | Zhao, Xuelong | Choe, Yoonsuck | Yang, Huei-Fang | Mi, Yuanyuan | Lin, Xiaohan | Wu, Si | Liedtke, Joscha | Schottdorf, Manuel | Wolf, Fred | Yamamura, Yoriko | Wickens, Jeffery R. | Rumbell, Timothy | Ramsey, Julia | Reyes, Amy | Draguljić, Danel | Hof, Patrick R. | Luebke, Jennifer | Weaver, Christina M. | He, Hu | Yang, Xu | Ma, Hailin | Xu, Zhiheng | Wang, Yuzhe | Baek, Kwangyeol | Morris, Laurel S. | Kundu, Prantik | Voon, Valerie | Agnes, Everton J. | Vogels, Tim P. | Podlaski, William F. | Giese, Martin | Kuravi, Pradeep | Vogels, Rufin | Seeholzer, Alexander | Podlaski, William | Ranjan, Rajnish | Vogels, Tim | Torres, Joaquin J. | Baroni, Fabiano | Latorre, Roberto | Gips, Bart | Lowet, Eric | Roberts, Mark J. | de Weerd, Peter | Jensen, Ole | van der Eerden, Jan | Goodarzinick, Abdorreza | Niry, Mohammad D. | Valizadeh, Alireza | Pariz, Aref | Parsi, Shervin S. | Warburton, Julia M. | Marucci, Lucia | Tamagnini, Francesco | Brown, Jon | Tsaneva-Atanasova, Krasimira | Kleberg, Florence I. | Triesch, Jochen | Moezzi, Bahar | Iannella, Nicolangelo | Schaworonkow, Natalie | Plogmacher, Lukas | Goldsworthy, Mitchell R. | Hordacre, Brenton | McDonnell, Mark D. | Ridding, Michael C. | Zapotocky, Martin | Smit, Daniel | Fouquet, Coralie | Trembleau, Alain | Dasgupta, Sakyasingha | Nishikawa, Isao | Aihara, Kazuyuki | Toyoizumi, Taro | Robb, Daniel T. | Mellen, Nick | Toporikova, Natalia | Tang, Rongxiang | Tang, Yi-Yuan | Liang, Guangsheng | Kiser, Seth A. | Howard, James H. | Goncharenko, Julia | Voronenko, Sergej O. | Ahamed, Tosif | Stephens, Greg | Yger, Pierre | Lefebvre, Baptiste | Spampinato, Giulia Lia Beatrice | Esposito, Elric | et Olivier Marre, Marcel Stimberg | Choi, Hansol | Song, Min-Ho | Chung, SueYeon | Lee, Dan D. | Sompolinsky, Haim | Phillips, Ryan S. | Smith, Jeffrey | Chatzikalymniou, Alexandra Pierri | Ferguson, Katie | Alex Cayco Gajic, N. | Clopath, Claudia | Angus Silver, R. | Gleeson, Padraig | Marin, Boris | Sadeh, Sadra | Quintana, Adrian | Cantarelli, Matteo | Dura-Bernal, Salvador | Lytton, William W. | Davison, Andrew | Li, Luozheng | Zhang, Wenhao | Wang, Dahui | Song, Youngjo | Park, Sol | Choi, Ilhwan | Shin, Hee-sup | Choi, Hannah | Pasupathy, Anitha | Shea-Brown, Eric | Huh, Dongsung | Sejnowski, Terrence J. | Vogt, Simon M. | Kumar, Arvind | Schmidt, Robert | Van Wert, Stephen | Schiff, Steven J. | Veale, Richard | Scheutz, Matthias | Lee, Sang Wan | Gallinaro, Júlia | Rotter, Stefan | Rubchinsky, Leonid L. | Cheung, Chung Ching | Ratnadurai-Giridharan, Shivakeshavan | Shomali, Safura Rashid | Ahmadabadi, Majid Nili | Shimazaki, Hideaki | Nader Rasuli, S. | Zhao, Xiaochen | Rasch, Malte J. | Wilting, Jens | Priesemann, Viola | Levina, Anna | Rudelt, Lucas | Lizier, Joseph T. | Spinney, Richard E. | Rubinov, Mikail | Wibral, Michael | Bak, Ji Hyun | Pillow, Jonathan | Zaho, Yuan | Park, Il Memming | Kang, Jiyoung | Park, Hae-Jeong | Jang, Jaeson | Paik, Se-Bum | Choi, Woochul | Lee, Changju | Song, Min | Lee, Hyeonsu | Park, Youngjin | Yilmaz, Ergin | Baysal, Veli | Ozer, Mahmut | Saska, Daniel | Nowotny, Thomas | Chan, Ho Ka | Diamond, Alan | Herrmann, Christoph S. | Murray, Micah M. | Ionta, Silvio | Hutt, Axel | Lefebvre, Jérémie | Weidel, Philipp | Duarte, Renato | Morrison, Abigail | Lee, Jung H. | Iyer, Ramakrishnan | Mihalas, Stefan | Koch, Christof | Petrovici, Mihai A. | Leng, Luziwei | Breitwieser, Oliver | Stöckel, David | Bytschok, Ilja | Martel, Roman | Bill, Johannes | Schemmel, Johannes | Meier, Karlheinz | Esler, Timothy B. | Burkitt, Anthony N. | Kerr, Robert R. | Tahayori, Bahman | Nolte, Max | Reimann, Michael W. | Muller, Eilif | Markram, Henry | Parziale, Antonio | Senatore, Rosa | Marcelli, Angelo | Skiker, K. | Maouene, M. | Neymotin, Samuel A. | Seidenstein, Alexandra | Lakatos, Peter | Sanger, Terence D. | Menzies, Rosemary J. | McLauchlan, Campbell | van Albada, Sacha J. | Kedziora, David J. | Neymotin, Samuel | Kerr, Cliff C. | Suter, Benjamin A. | Shepherd, Gordon M. G. | Ryu, Juhyoung | Lee, Sang-Hun | Lee, Joonwon | Lee, Hyang Jung | Lim, Daeseob | Wang, Jisung | Lee, Heonsoo | Jung, Nam | Anh Quang, Le | Maeng, Seung Eun | Lee, Tae Ho | Lee, Jae Woo | Park, Chang-hyun | Ahn, Sora | Moon, Jangsup | Choi, Yun Seo | Kim, Juhee | Jun, Sang Beom | Lee, Seungjun | Lee, Hyang Woon | Jo, Sumin | Jun, Eunji | Yu, Suin | Goetze, Felix | Lai, Pik-Yin | Kim, Seonghyun | Kwag, Jeehyun | Jang, Hyun Jae | Filipović, Marko | Reig, Ramon | Aertsen, Ad | Silberberg, Gilad | Bachmann, Claudia | Buttler, Simone | Jacobs, Heidi | Dillen, Kim | Fink, Gereon R. | Kukolja, Juraj | Kepple, Daniel | Giaffar, Hamza | Rinberg, Dima | Shea, Steven | Koulakov, Alex | Bahuguna, Jyotika | Tetzlaff, Tom | Kotaleski, Jeanette Hellgren | Kunze, Tim | Peterson, Andre | Knösche, Thomas | Kim, Minjung | Kim, Hojeong | Park, Ji Sung | Yeon, Ji Won | Kim, Sung-Phil | Kang, Jae-Hwan | Lee, Chungho | Spiegler, Andreas | Petkoski, Spase | Palva, Matias J. | Jirsa, Viktor K. | Saggio, Maria L. | Siep, Silvan F. | Stacey, William C. | Bernar, Christophe | Choung, Oh-hyeon | Jeong, Yong | Lee, Yong-il | Kim, Su Hyun | Jeong, Mir | Lee, Jeungmin | Kwon, Jaehyung | Kralik, Jerald D. | Jahng, Jaehwan | Hwang, Dong-Uk | Kwon, Jae-Hyung | Park, Sang-Min | Kim, Seongkyun | Kim, Hyoungkyu | Kim, Pyeong Soo | Yoon, Sangsup | Lim, Sewoong | Park, Choongseok | Miller, Thomas | Clements, Katie | Ahn, Sungwoo | Ji, Eoon Hye | Issa, Fadi A. | Baek, JeongHun | Oba, Shigeyuki | Yoshimoto, Junichiro | Doya, Kenji | Ishii, Shin | Mosqueiro, Thiago S. | Strube-Bloss, Martin F. | Smith, Brian | Huerta, Ramon | Hadrava, Michal | Hlinka, Jaroslav | Bos, Hannah | Helias, Moritz | Welzig, Charles M. | Harper, Zachary J. | Kim, Won Sup | Shin, In-Seob | Baek, Hyeon-Man | Han, Seung Kee | Richter, René | Vitay, Julien | Beuth, Frederick | Hamker, Fred H. | Toppin, Kelly | Guo, Yixin | Graham, Bruce P. | Kale, Penelope J. | Gollo, Leonardo L. | Stern, Merav | Abbott, L. F. | Fedorov, Leonid A. | Giese, Martin A. | Ardestani, Mohammad Hovaidi | Faraji, Mohammad Javad | Preuschoff, Kerstin | Gerstner, Wulfram | van Gendt, Margriet J. | Briaire, Jeroen J. | Kalkman, Randy K. | Frijns, Johan H. M. | Lee, Won Hee | Frangou, Sophia | Fulcher, Ben D. | Tran, Patricia H. P. | Fornito, Alex | Gliske, Stephen V. | Lim, Eugene | Holman, Katherine A. | Fink, Christian G. | Kim, Jinseop S. | Mu, Shang | Briggman, Kevin L. | Sebastian Seung, H. | Wegener, Detlef | Bohnenkamp, Lisa | Ernst, Udo A. | Devor, Anna | Dale, Anders M. | Lines, Glenn T. | Edwards, Andy | Tveito, Aslak | Hagen, Espen | Senk, Johanna | Diesmann, Markus | Schmidt, Maximilian | Bakker, Rembrandt | Shen, Kelly | Bezgin, Gleb | Hilgetag, Claus-Christian | van Albada, Sacha Jennifer | Sun, Haoqi | Sourina, Olga | Huang, Guang-Bin | Klanner, Felix | Denk, Cornelia | Glomb, Katharina | Ponce-Alvarez, Adrián | Gilson, Matthieu | Ritter, Petra | Deco, Gustavo | Witek, Maria A. G. | Clarke, Eric F. | Hansen, Mads | Wallentin, Mikkel | Kringelbach, Morten L. | Vuust, Peter | Klingbeil, Guido | De Schutter, Erik | Chen, Weiliang | Zang, Yunliang | Hong, Sungho | Takashima, Akira | Zamora, Criseida | Gallimore, Andrew R. | Goldschmidt, Dennis | Manoonpong, Poramate | Karoly, Philippa J. | Freestone, Dean R. | Soundry, Daniel | Kuhlmann, Levin | Paninski, Liam | Cook, Mark | Lee, Jaejin | Fishman, Yonatan I. | Cohen, Yale E. | Roberts, James A. | Cocchi, Luca | Sweeney, Yann | Lee, Soohyun | Jung, Woo-Sung | Kim, Youngsoo | Jung, Younginha | Song, Yoon-Kyu | Chavane, Frédéric | Soman, Karthik | Muralidharan, Vignesh | Srinivasa Chakravarthy, V. | Shivkumar, Sabyasachi | Mandali, Alekhya | Pragathi Priyadharsini, B. | Mehta, Hima | Davey, Catherine E. | Brinkman, Braden A. W. | Kekona, Tyler | Rieke, Fred | Buice, Michael | De Pittà, Maurizio | Berry, Hugues | Brunel, Nicolas | Breakspear, Michael | Marsat, Gary | Drew, Jordan | Chapman, Phillip D. | Daly, Kevin C. | Bradle, Samual P. | Seo, Sat Byul | Su, Jianzhong | Kavalali, Ege T. | Blackwell, Justin | Shiau, LieJune | Buhry, Laure | Basnayake, Kanishka | Lee, Sue-Hyun | Levy, Brandon A. | Baker, Chris I. | Leleu, Timothée | Philips, Ryan T. | Chhabria, Karishma
BMC Neuroscience  2016;17(Suppl 1):54.
Table of contents
A1 Functional advantages of cell-type heterogeneity in neural circuits
Tatyana O. Sharpee
A2 Mesoscopic modeling of propagating waves in visual cortex
Alain Destexhe
A3 Dynamics and biomarkers of mental disorders
Mitsuo Kawato
F1 Precise recruitment of spiking output at theta frequencies requires dendritic h-channels in multi-compartment models of oriens-lacunosum/moleculare hippocampal interneurons
Vladislav Sekulić, Frances K. Skinner
F2 Kernel methods in reconstruction of current sources from extracellular potentials for single cells and the whole brains
Daniel K. Wójcik, Chaitanya Chintaluri, Dorottya Cserpán, Zoltán Somogyvári
F3 The synchronized periods depend on intracellular transcriptional repression mechanisms in circadian clocks.
Jae Kyoung Kim, Zachary P. Kilpatrick, Matthew R. Bennett, Kresimir Josić
O1 Assessing irregularity and coordination of spiking-bursting rhythms in central pattern generators
Irene Elices, David Arroyo, Rafael Levi, Francisco B. Rodriguez, Pablo Varona
O2 Regulation of top-down processing by cortically-projecting parvalbumin positive neurons in basal forebrain
Eunjin Hwang, Bowon Kim, Hio-Been Han, Tae Kim, James T. McKenna, Ritchie E. Brown, Robert W. McCarley, Jee Hyun Choi
O3 Modeling auditory stream segregation, build-up and bistability
James Rankin, Pamela Osborn Popp, John Rinzel
O4 Strong competition between tonotopic neural ensembles explains pitch-related dynamics of auditory cortex evoked fields
Alejandro Tabas, André Rupp, Emili Balaguer-Ballester
O5 A simple model of retinal response to multi-electrode stimulation
Matias I. Maturana, David B. Grayden, Shaun L. Cloherty, Tatiana Kameneva, Michael R. Ibbotson, Hamish Meffin
O6 Noise correlations in V4 area correlate with behavioral performance in visual discrimination task
Veronika Koren, Timm Lochmann, Valentin Dragoi, Klaus Obermayer
O7 Input-location dependent gain modulation in cerebellar nucleus neurons
Maria Psarrou, Maria Schilstra, Neil Davey, Benjamin Torben-Nielsen, Volker Steuber
O8 Analytic solution of cable energy function for cortical axons and dendrites
Huiwen Ju, Jiao Yu, Michael L. Hines, Liang Chen, Yuguo Yu
O9 C. elegans interactome: interactive visualization of Caenorhabditis elegans worm neuronal network
Jimin Kim, Will Leahy, Eli Shlizerman
O10 Is the model any good? Objective criteria for computational neuroscience model selection
Justas Birgiolas, Richard C. Gerkin, Sharon M. Crook
O11 Cooperation and competition of gamma oscillation mechanisms
Atthaphon Viriyopase, Raoul-Martin Memmesheimer, Stan Gielen
O12 A discrete structure of the brain waves
Yuri Dabaghian, Justin DeVito, Luca Perotti
O13 Direction-specific silencing of the Drosophila gaze stabilization system
Anmo J. Kim, Lisa M. Fenk, Cheng Lyu, Gaby Maimon
O14 What does the fruit fly think about values? A model of olfactory associative learning
Chang Zhao, Yves Widmer, Simon Sprecher,Walter Senn
O15 Effects of ionic diffusion on power spectra of local field potentials (LFP)
Geir Halnes, Tuomo Mäki-Marttunen, Daniel Keller, Klas H. Pettersen,Ole A. Andreassen, Gaute T. Einevoll
O16 Large-scale cortical models towards understanding relationship between brain structure abnormalities and cognitive deficits
Yasunori Yamada
O17 Spatial coarse-graining the brain: origin of minicolumns
Moira L. Steyn-Ross, D. Alistair Steyn-Ross
O18 Modeling large-scale cortical networks with laminar structure
Jorge F. Mejias, John D. Murray, Henry Kennedy, Xiao-Jing Wang
O19 Information filtering by partial synchronous spikes in a neural population
Alexandra Kruscha, Jan Grewe, Jan Benda, Benjamin Lindner
O20 Decoding context-dependent olfactory valence in Drosophila
Laurent Badel, Kazumi Ohta, Yoshiko Tsuchimoto, Hokto Kazama
P1 Neural network as a scale-free network: the role of a hub
B. Kahng
P2 Hemodynamic responses to emotions and decisions using near-infrared spectroscopy optical imaging
Nicoladie D. Tam
P3 Phase space analysis of hemodynamic responses to intentional movement directions using functional near-infrared spectroscopy (fNIRS) optical imaging technique
Nicoladie D.Tam, Luca Pollonini, George Zouridakis
P4 Modeling jamming avoidance of weakly electric fish
Jaehyun Soh, DaeEun Kim
P5 Synergy and redundancy of retinal ganglion cells in prediction
Minsu Yoo, S. E. Palmer
P6 A neural field model with a third dimension representing cortical depth
Viviana Culmone, Ingo Bojak
P7 Network analysis of a probabilistic connectivity model of the Xenopus tadpole spinal cord
Andrea Ferrario, Robert Merrison-Hort, Roman Borisyuk
P8 The recognition dynamics in the brain
Chang Sub Kim
P9 Multivariate spike train analysis using a positive definite kernel
Taro Tezuka
P10 Synchronization of burst periods may govern slow brain dynamics during general anesthesia
Pangyu Joo
P11 The ionic basis of heterogeneity affects stochastic synchrony
Young-Ah Rho, Shawn D. Burton, G. Bard Ermentrout, Jaeseung Jeong, Nathaniel N. Urban
P12 Circular statistics of noise in spike trains with a periodic component
Petr Marsalek
P14 Representations of directions in EEG-BCI using Gaussian readouts
Hoon-Hee Kim, Seok-hyun Moon, Do-won Lee, Sung-beom Lee, Ji-yong Lee, Jaeseung Jeong
P15 Action selection and reinforcement learning in basal ganglia during reaching movements
Yaroslav I. Molkov, Khaldoun Hamade, Wondimu Teka, William H. Barnett, Taegyo Kim, Sergey Markin, Ilya A. Rybak
P17 Axon guidance: modeling axonal growth in T-Junction assay
Csaba Forro, Harald Dermutz, László Demkó, János Vörös
P19 Transient cell assembly networks encode persistent spatial memories
Yuri Dabaghian, Andrey Babichev
P20 Theory of population coupling and applications to describe high order correlations in large populations of interacting neurons
Haiping Huang
P21 Design of biologically-realistic simulations for motor control
Sergio Verduzco-Flores
P22 Towards understanding the functional impact of the behavioural variability of neurons
Filipa Dos Santos, Peter Andras
P23 Different oscillatory dynamics underlying gamma entrainment deficits in schizophrenia
Christoph Metzner, Achim Schweikard, Bartosz Zurowski
P24 Memory recall and spike frequency adaptation
James P. Roach, Leonard M. Sander, Michal R. Zochowski
P25 Stability of neural networks and memory consolidation preferentially occur near criticality
Quinton M. Skilling, Nicolette Ognjanovski, Sara J. Aton, Michal Zochowski
P26 Stochastic Oscillation in Self-Organized Critical States of Small Systems: Sensitive Resting State in Neural Systems
Sheng-Jun Wang, Guang Ouyang, Jing Guang, Mingsha Zhang, K. Y. Michael Wong, Changsong Zhou
P27 Neurofield: a C++ library for fast simulation of 2D neural field models
Peter A. Robinson, Paula Sanz-Leon, Peter M. Drysdale, Felix Fung, Romesh G. Abeysuriya, Chris J. Rennie, Xuelong Zhao
P28 Action-based grounding: Beyond encoding/decoding in neural code
Yoonsuck Choe, Huei-Fang Yang
P29 Neural computation in a dynamical system with multiple time scales
Yuanyuan Mi, Xiaohan Lin, Si Wu
P30 Maximum entropy models for 3D layouts of orientation selectivity
Joscha Liedtke, Manuel Schottdorf, Fred Wolf
P31 A behavioral assay for probing computations underlying curiosity in rodents
Yoriko Yamamura, Jeffery R. Wickens
P32 Using statistical sampling to balance error function contributions to optimization of conductance-based models
Timothy Rumbell, Julia Ramsey, Amy Reyes, Danel Draguljić, Patrick R. Hof, Jennifer Luebke, Christina M. Weaver
P33 Exploration and implementation of a self-growing and self-organizing neuron network building algorithm
Hu He, Xu Yang, Hailin Ma, Zhiheng Xu, Yuzhe Wang
P34 Disrupted resting state brain network in obese subjects: a data-driven graph theory analysis
Kwangyeol Baek, Laurel S. Morris, Prantik Kundu, Valerie Voon
P35 Dynamics of cooperative excitatory and inhibitory plasticity
Everton J. Agnes, Tim P. Vogels
P36 Frequency-dependent oscillatory signal gating in feed-forward networks of integrate-and-fire neurons
William F. Podlaski, Tim P. Vogels
P37 Phenomenological neural model for adaptation of neurons in area IT
Martin Giese, Pradeep Kuravi, Rufin Vogels
P38 ICGenealogy: towards a common topology of neuronal ion channel function and genealogy in model and experiment
Alexander Seeholzer, William Podlaski, Rajnish Ranjan, Tim Vogels
P39 Temporal input discrimination from the interaction between dynamic synapses and neural subthreshold oscillations
Joaquin J. Torres, Fabiano Baroni, Roberto Latorre, Pablo Varona
P40 Different roles for transient and sustained activity during active visual processing
Bart Gips, Eric Lowet, Mark J. Roberts, Peter de Weerd, Ole Jensen, Jan van der Eerden
P41 Scale-free functional networks of 2D Ising model are highly robust against structural defects: neuroscience implications
Abdorreza Goodarzinick, Mohammad D. Niry, Alireza Valizadeh
P42 High frequency neuron can facilitate propagation of signal in neural networks
Aref Pariz, Shervin S. Parsi, Alireza Valizadeh
P43 Investigating the effect of Alzheimer’s disease related amyloidopathy on gamma oscillations in the CA1 region of the hippocampus
Julia M. Warburton, Lucia Marucci, Francesco Tamagnini, Jon Brown, Krasimira Tsaneva-Atanasova
P44 Long-tailed distributions of inhibitory and excitatory weights in a balanced network with eSTDP and iSTDP
Florence I. Kleberg, Jochen Triesch
P45 Simulation of EMG recording from hand muscle due to TMS of motor cortex
Bahar Moezzi, Nicolangelo Iannella, Natalie Schaworonkow, Lukas Plogmacher, Mitchell R. Goldsworthy, Brenton Hordacre, Mark D. McDonnell, Michael C. Ridding, Jochen Triesch
P46 Structure and dynamics of axon network formed in primary cell culture
Martin Zapotocky, Daniel Smit, Coralie Fouquet, Alain Trembleau
P47 Efficient signal processing and sampling in random networks that generate variability
Sakyasingha Dasgupta, Isao Nishikawa, Kazuyuki Aihara, Taro Toyoizumi
P48 Modeling the effect of riluzole on bursting in respiratory neural networks
Daniel T. Robb, Nick Mellen, Natalia Toporikova
P49 Mapping relaxation training using effective connectivity analysis
Rongxiang Tang, Yi-Yuan Tang
P50 Modeling neuron oscillation of implicit sequence learning
Guangsheng Liang, Seth A. Kiser, James H. Howard, Jr., Yi-Yuan Tang
P51 The role of cerebellar short-term synaptic plasticity in the pathology and medication of downbeat nystagmus
Julia Goncharenko, Neil Davey, Maria Schilstra, Volker Steuber
P52 Nonlinear response of noisy neurons
Sergej O. Voronenko, Benjamin Lindner
P53 Behavioral embedding suggests multiple chaotic dimensions underlie C. elegans locomotion
Tosif Ahamed, Greg Stephens
P54 Fast and scalable spike sorting for large and dense multi-electrodes recordings
Pierre Yger, Baptiste Lefebvre, Giulia Lia Beatrice Spampinato, Elric Esposito, Marcel Stimberg et Olivier Marre
P55 Sufficient sampling rates for fast hand motion tracking
Hansol Choi, Min-Ho Song
P56 Linear readout of object manifolds
SueYeon Chung, Dan D. Lee, Haim Sompolinsky
P57 Differentiating models of intrinsic bursting and rhythm generation of the respiratory pre-Bötzinger complex using phase response curves
Ryan S. Phillips, Jeffrey Smith
P58 The effect of inhibitory cell network interactions during theta rhythms on extracellular field potentials in CA1 hippocampus
Alexandra Pierri Chatzikalymniou, Katie Ferguson, Frances K. Skinner
P59 Expansion recoding through sparse sampling in the cerebellar input layer speeds learning
N. Alex Cayco Gajic, Claudia Clopath, R. Angus Silver
P60 A set of curated cortical models at multiple scales on Open Source Brain
Padraig Gleeson, Boris Marin, Sadra Sadeh, Adrian Quintana, Matteo Cantarelli, Salvador Dura-Bernal, William W. Lytton, Andrew Davison, R. Angus Silver
P61 A synaptic story of dynamical information encoding in neural adaptation
Luozheng Li, Wenhao Zhang, Yuanyuan Mi, Dahui Wang, Si Wu
P62 Physical modeling of rule-observant rodent behavior
Youngjo Song, Sol Park, Ilhwan Choi, Jaeseung Jeong, Hee-sup Shin
P64 Predictive coding in area V4 and prefrontal cortex explains dynamic discrimination of partially occluded shapes
Hannah Choi, Anitha Pasupathy, Eric Shea-Brown
P65 Stability of FORCE learning on spiking and rate-based networks
Dongsung Huh, Terrence J. Sejnowski
P66 Stabilising STDP in striatal neurons for reliable fast state recognition in noisy environments
Simon M. Vogt, Arvind Kumar, Robert Schmidt
P67 Electrodiffusion in one- and two-compartment neuron models for characterizing cellular effects of electrical stimulation
Stephen Van Wert, Steven J. Schiff
P68 STDP improves speech recognition capabilities in spiking recurrent circuits parameterized via differential evolution Markov Chain Monte Carlo
Richard Veale, Matthias Scheutz
P69 Bidirectional transformation between dominant cortical neural activities and phase difference distributions
Sang Wan Lee
P70 Maturation of sensory networks through homeostatic structural plasticity
Júlia Gallinaro, Stefan Rotter
P71 Corticothalamic dynamics: structure, number of solutions and stability of steady-state solutions in the space of synaptic couplings
Paula Sanz-Leon, Peter A. Robinson
P72 Optogenetic versus electrical stimulation of the parkinsonian basal ganglia. Computational study
Leonid L. Rubchinsky, Chung Ching Cheung, Shivakeshavan Ratnadurai-Giridharan
P73 Exact spike-timing distribution reveals higher-order interactions of neurons
Safura Rashid Shomali, Majid Nili Ahmadabadi, Hideaki Shimazaki, S. Nader Rasuli
P74 Neural mechanism of visual perceptual learning using a multi-layered neural network
Xiaochen Zhao, Malte J. Rasch
P75 Inferring collective spiking dynamics from mostly unobserved systems
Jens Wilting, Viola Priesemann
P76 How to infer distributions in the brain from subsampled observations
Anna Levina, Viola Priesemann
P77 Influences of embedding and estimation strategies on the inferred memory of single spiking neurons
Lucas Rudelt, Joseph T. Lizier, Viola Priesemann
P78 A nearest-neighbours based estimator for transfer entropy between spike trains
Joseph T. Lizier, Richard E. Spinney, Mikail Rubinov, Michael Wibral, Viola Priesemann
P79 Active learning of psychometric functions with multinomial logistic models
Ji Hyun Bak, Jonathan Pillow
P81 Inferring low-dimensional network dynamics with variational latent Gaussian process
Yuan Zaho, Il Memming Park
P82 Computational investigation of energy landscapes in the resting state subcortical brain network
Jiyoung Kang, Hae-Jeong Park
P83 Local repulsive interaction between retinal ganglion cells can generate a consistent spatial periodicity of orientation map
Jaeson Jang, Se-Bum Paik
P84 Phase duration of bistable perception reveals intrinsic time scale of perceptual decision under noisy condition
Woochul Choi, Se-Bum Paik
P85 Feedforward convergence between retina and primary visual cortex can determine the structure of orientation map
Changju Lee, Jaeson Jang, Se-Bum Paik
P86 Computational method classifying neural network activity patterns for imaging data
Min Song, Hyeonsu Lee, Se-Bum Paik
P87 Symmetry of spike-timing-dependent-plasticity kernels regulates volatility of memory
Youngjin Park, Woochul Choi, Se-Bum Paik
P88 Effects of time-periodic coupling strength on the first-spike latency dynamics of a scale-free network of stochastic Hodgkin-Huxley neurons
Ergin Yilmaz, Veli Baysal, Mahmut Ozer
P89 Spectral properties of spiking responses in V1 and V4 change within the trial and are highly relevant for behavioral performance
Veronika Koren, Klaus Obermayer
P90 Methods for building accurate models of individual neurons
Daniel Saska, Thomas Nowotny
P91 A full size mathematical model of the early olfactory system of honeybees
Ho Ka Chan, Alan Diamond, Thomas Nowotny
P92 Stimulation-induced tuning of ongoing oscillations in spiking neural networks
Christoph S. Herrmann, Micah M. Murray, Silvio Ionta, Axel Hutt, Jérémie Lefebvre
P93 Decision-specific sequences of neural activity in balanced random networks driven by structured sensory input
Philipp Weidel, Renato Duarte, Abigail Morrison
P94 Modulation of tuning induced by abrupt reduction of SST cell activity
Jung H. Lee, Ramakrishnan Iyer, Stefan Mihalas
P95 The functional role of VIP cell activation during locomotion
Jung H. Lee, Ramakrishnan Iyer, Christof Koch, Stefan Mihalas
P96 Stochastic inference with spiking neural networks
Mihai A. Petrovici, Luziwei Leng, Oliver Breitwieser, David Stöckel, Ilja Bytschok, Roman Martel, Johannes Bill, Johannes Schemmel, Karlheinz Meier
P97 Modeling orientation-selective electrical stimulation with retinal prostheses
Timothy B. Esler, Anthony N. Burkitt, David B. Grayden, Robert R. Kerr, Bahman Tahayori, Hamish Meffin
P98 Ion channel noise can explain firing correlation in auditory nerves
Bahar Moezzi, Nicolangelo Iannella, Mark D. McDonnell
P99 Limits of temporal encoding of thalamocortical inputs in a neocortical microcircuit
Max Nolte, Michael W. Reimann, Eilif Muller, Henry Markram
P100 On the representation of arm reaching movements: a computational model
Antonio Parziale, Rosa Senatore, Angelo Marcelli
P101 A computational model for investigating the role of cerebellum in acquisition and retention of motor behavior
Rosa Senatore, Antonio Parziale, Angelo Marcelli
P102 The emergence of semantic categories from a large-scale brain network of semantic knowledge
K. Skiker, M. Maouene
P103 Multiscale modeling of M1 multitarget pharmacotherapy for dystonia
Samuel A. Neymotin, Salvador Dura-Bernal, Alexandra Seidenstein, Peter Lakatos, Terence D. Sanger, William W. Lytton
P104 Effect of network size on computational capacity
Salvador Dura-Bernal, Rosemary J. Menzies, Campbell McLauchlan, Sacha J. van Albada, David J. Kedziora, Samuel Neymotin, William W. Lytton, Cliff C. Kerr
P105 NetPyNE: a Python package for NEURON to facilitate development and parallel simulation of biological neuronal networks
Salvador Dura-Bernal, Benjamin A. Suter, Samuel A. Neymotin, Cliff C. Kerr, Adrian Quintana, Padraig Gleeson, Gordon M. G. Shepherd, William W. Lytton
P107 Inter-areal and inter-regional inhomogeneity in co-axial anisotropy of Cortical Point Spread in human visual areas
Juhyoung Ryu, Sang-Hun Lee
P108 Two bayesian quanta of uncertainty explain the temporal dynamics of cortical activity in the non-sensory areas during bistable perception
Joonwon Lee, Sang-Hun Lee
P109 Optimal and suboptimal integration of sensory and value information in perceptual decision making
Hyang Jung Lee, Sang-Hun Lee
P110 A Bayesian algorithm for phoneme Perception and its neural implementation
Daeseob Lim, Sang-Hun Lee
P111 Complexity of EEG signals is reduced during unconsciousness induced by ketamine and propofol
Jisung Wang, Heonsoo Lee
P112 Self-organized criticality of neural avalanche in a neural model on complex networks
Nam Jung, Le Anh Quang, Seung Eun Maeng, Tae Ho Lee, Jae Woo Lee
P113 Dynamic alterations in connection topology of the hippocampal network during ictal-like epileptiform activity in an in vitro rat model
Chang-hyun Park, Sora Ahn, Jangsup Moon, Yun Seo Choi, Juhee Kim, Sang Beom Jun, Seungjun Lee, Hyang Woon Lee
P114 Computational model to replicate seizure suppression effect by electrical stimulation
Sora Ahn, Sumin Jo, Eunji Jun, Suin Yu, Hyang Woon Lee, Sang Beom Jun, Seungjun Lee
P115 Identifying excitatory and inhibitory synapses in neuronal networks from spike trains using sorted local transfer entropy
Felix Goetze, Pik-Yin Lai
P116 Neural network model for obstacle avoidance based on neuromorphic computational model of boundary vector cell and head direction cell
Seonghyun Kim, Jeehyun Kwag
P117 Dynamic gating of spike pattern propagation by Hebbian and anti-Hebbian spike timing-dependent plasticity in excitatory feedforward network model
Hyun Jae Jang, Jeehyun Kwag
P118 Inferring characteristics of input correlations of cells exhibiting up-down state transitions in the rat striatum
Marko Filipović, Ramon Reig, Ad Aertsen, Gilad Silberberg, Arvind Kumar
P119 Graph properties of the functional connected brain under the influence of Alzheimer’s disease
Claudia Bachmann, Simone Buttler, Heidi Jacobs, Kim Dillen, Gereon R. Fink, Juraj Kukolja, Abigail Morrison
P120 Learning sparse representations in the olfactory bulb
Daniel Kepple, Hamza Giaffar, Dima Rinberg, Steven Shea, Alex Koulakov
P121 Functional classification of homologous basal-ganglia networks
Jyotika Bahuguna,Tom Tetzlaff, Abigail Morrison, Arvind Kumar, Jeanette Hellgren Kotaleski
P122 Short term memory based on multistability
Tim Kunze, Andre Peterson, Thomas Knösche
P123 A physiologically plausible, computationally efficient model and simulation software for mammalian motor units
Minjung Kim, Hojeong Kim
P125 Decoding laser-induced somatosensory information from EEG
Ji Sung Park, Ji Won Yeon, Sung-Phil Kim
P126 Phase synchronization of alpha activity for EEG-based personal authentication
Jae-Hwan Kang, Chungho Lee, Sung-Phil Kim
P129 Investigating phase-lags in sEEG data using spatially distributed time delays in a large-scale brain network model
Andreas Spiegler, Spase Petkoski, Matias J. Palva, Viktor K. Jirsa
P130 Epileptic seizures in the unfolding of a codimension-3 singularity
Maria L. Saggio, Silvan F. Siep, Andreas Spiegler, William C. Stacey, Christophe Bernard, Viktor K. Jirsa
P131 Incremental dimensional exploratory reasoning under multi-dimensional environment
Oh-hyeon Choung, Yong Jeong
P132 A low-cost model of eye movements and memory in personal visual cognition
Yong-il Lee, Jaeseung Jeong
P133 Complex network analysis of structural connectome of autism spectrum disorder patients
Su Hyun Kim, Mir Jeong, Jaeseung Jeong
P134 Cognitive motives and the neural correlates underlying human social information transmission, gossip
Jeungmin Lee, Jaehyung Kwon, Jerald D. Kralik, Jaeseung Jeong
P135 EEG hyperscanning detects neural oscillation for the social interaction during the economic decision-making
Jaehwan Jahng, Dong-Uk Hwang, Jaeseung Jeong
P136 Detecting purchase decision based on hyperfrontality of the EEG
Jae-Hyung Kwon, Sang-Min Park, Jaeseung Jeong
P137 Vulnerability-based critical neurons, synapses, and pathways in the Caenorhabditis elegans connectome
Seongkyun Kim, Hyoungkyu Kim, Jerald D. Kralik, Jaeseung Jeong
P138 Motif analysis reveals functionally asymmetrical neurons in C. elegans
Pyeong Soo Kim, Seongkyun Kim, Hyoungkyu Kim, Jaeseung Jeong
P139 Computational approach to preference-based serial decision dynamics: do temporal discounting and working memory affect it?
Sangsup Yoon, Jaehyung Kwon, Sewoong Lim, Jaeseung Jeong
P141 Social stress induced neural network reconfiguration affects decision making and learning in zebrafish
Choongseok Park, Thomas Miller, Katie Clements, Sungwoo Ahn, Eoon Hye Ji, Fadi A. Issa
P142 Descriptive, generative, and hybrid approaches for neural connectivity inference from neural activity data
JeongHun Baek, Shigeyuki Oba, Junichiro Yoshimoto, Kenji Doya, Shin Ishii
P145 Divergent-convergent synaptic connectivities accelerate coding in multilayered sensory systems
Thiago S. Mosqueiro, Martin F. Strube-Bloss, Brian Smith, Ramon Huerta
P146 Swinging networks
Michal Hadrava, Jaroslav Hlinka
P147 Inferring dynamically relevant motifs from oscillatory stimuli: challenges, pitfalls, and solutions
Hannah Bos, Moritz Helias
P148 Spatiotemporal mapping of brain network dynamics during cognitive tasks using magnetoencephalography and deep learning
Charles M. Welzig, Zachary J. Harper
P149 Multiscale complexity analysis for the segmentation of MRI images
Won Sup Kim, In-Seob Shin, Hyeon-Man Baek, Seung Kee Han
P150 A neuro-computational model of emotional attention
René Richter, Julien Vitay, Frederick Beuth, Fred H. Hamker
P151 Multi-site delayed feedback stimulation in parkinsonian networks
Kelly Toppin, Yixin Guo
P152 Bistability in Hodgkin–Huxley-type equations
Tatiana Kameneva, Hamish Meffin, Anthony N. Burkitt, David B. Grayden
P153 Phase changes in postsynaptic spiking due to synaptic connectivity and short term plasticity: mathematical analysis of frequency dependency
Mark D. McDonnell, Bruce P. Graham
P154 Quantifying resilience patterns in brain networks: the importance of directionality
Penelope J. Kale, Leonardo L. Gollo
P155 Dynamics of rate-model networks with separate excitatory and inhibitory populations
Merav Stern, L. F. Abbott
P156 A model for multi-stable dynamics in action recognition modulated by integration of silhouette and shading cues
Leonid A. Fedorov, Martin A. Giese
P157 Spiking model for the interaction between action recognition and action execution
Mohammad Hovaidi Ardestani, Martin Giese
P158 Surprise-modulated belief update: how to learn within changing environments?
Mohammad Javad Faraji, Kerstin Preuschoff, Wulfram Gerstner
P159 A fast, stochastic and adaptive model of auditory nerve responses to cochlear implant stimulation
Margriet J. van Gendt, Jeroen J. Briaire, Randy K. Kalkman, Johan H. M. Frijns
P160 Quantitative comparison of graph theoretical measures of simulated and empirical functional brain networks
Won Hee Lee, Sophia Frangou
P161 Determining discriminative properties of fMRI signals in schizophrenia using highly comparative time-series analysis
Ben D. Fulcher, Patricia H. P. Tran, Alex Fornito
P162 Emergence of narrowband LFP oscillations from completely asynchronous activity during seizures and high-frequency oscillations
Stephen V. Gliske, William C. Stacey, Eugene Lim, Katherine A. Holman, Christian G. Fink
P163 Neuronal diversity in structure and function: cross-validation of anatomical and physiological classification of retinal ganglion cells in the mouse
Jinseop S. Kim, Shang Mu, Kevin L. Briggman, H. Sebastian Seung, the EyeWirers
P164 Analysis and modelling of transient firing rate changes in area MT in response to rapid stimulus feature changes
Detlef Wegener, Lisa Bohnenkamp, Udo A. Ernst
P165 Step-wise model fitting accounting for high-resolution spatial measurements: construction of a layer V pyramidal cell model with reduced morphology
Tuomo Mäki-Marttunen, Geir Halnes, Anna Devor, Christoph Metzner, Anders M. Dale, Ole A. Andreassen, Gaute T. Einevoll
P166 Contributions of schizophrenia-associated genes to neuron firing and cardiac pacemaking: a polygenic modeling approach
Tuomo Mäki-Marttunen, Glenn T. Lines, Andy Edwards, Aslak Tveito, Anders M. Dale, Gaute T. Einevoll, Ole A. Andreassen
P167 Local field potentials in a 4 × 4 mm2 multi-layered network model
Espen Hagen, Johanna Senk, Sacha J. van Albada, Markus Diesmann
P168 A spiking network model explains multi-scale properties of cortical dynamics
Maximilian Schmidt, Rembrandt Bakker, Kelly Shen, Gleb Bezgin, Claus-Christian Hilgetag, Markus Diesmann, Sacha Jennifer van Albada
P169 Using joint weight-delay spike-timing dependent plasticity to find polychronous neuronal groups
Haoqi Sun, Olga Sourina, Guang-Bin Huang, Felix Klanner, Cornelia Denk
P170 Tensor decomposition reveals RSNs in simulated resting state fMRI
Katharina Glomb, Adrián Ponce-Alvarez, Matthieu Gilson, Petra Ritter, Gustavo Deco
P171 Getting in the groove: testing a new model-based method for comparing task-evoked vs resting-state activity in fMRI data on music listening
Matthieu Gilson, Maria AG Witek, Eric F. Clarke, Mads Hansen, Mikkel Wallentin, Gustavo Deco, Morten L. Kringelbach, Peter Vuust
P172 STochastic engine for pathway simulation (STEPS) on massively parallel processors
Guido Klingbeil, Erik De Schutter
P173 Toolkit support for complex parallel spatial stochastic reaction–diffusion simulation in STEPS
Weiliang Chen, Erik De Schutter
P174 Modeling the generation and propagation of Purkinje cell dendritic spikes caused by parallel fiber synaptic input
Yunliang Zang, Erik De Schutter
P175 Dendritic morphology determines how dendrites are organized into functional subunits
Sungho Hong, Akira Takashima, Erik De Schutter
P176 A model of Ca2+/calmodulin-dependent protein kinase II activity in long term depression at Purkinje cells
Criseida Zamora, Andrew R. Gallimore, Erik De Schutter
P177 Reward-modulated learning of population-encoded vectors for insect-like navigation in embodied agents
Dennis Goldschmidt, Poramate Manoonpong, Sakyasingha Dasgupta
P178 Data-driven neural models part II: connectivity patterns of human seizures
Philippa J. Karoly, Dean R. Freestone, Daniel Soundry, Levin Kuhlmann, Liam Paninski, Mark Cook
P179 Data-driven neural models part I: state and parameter estimation
Dean R. Freestone, Philippa J. Karoly, Daniel Soundry, Levin Kuhlmann, Mark Cook
P180 Spectral and spatial information processing in human auditory streaming
Jaejin Lee, Yonatan I. Fishman, Yale E. Cohen
P181 A tuning curve for the global effects of local perturbations in neural activity: Mapping the systems-level susceptibility of the brain
Leonardo L. Gollo, James A. Roberts, Luca Cocchi
P182 Diverse homeostatic responses to visual deprivation mediated by neural ensembles
Yann Sweeney, Claudia Clopath
P183 Opto-EEG: a novel method for investigating functional connectome in mouse brain based on optogenetics and high density electroencephalography
Soohyun Lee, Woo-Sung Jung, Jee Hyun Choi
P184 Biphasic responses of frontal gamma network to repetitive sleep deprivation during REM sleep
Bowon Kim, Youngsoo Kim, Eunjin Hwang, Jee Hyun Choi
P185 Brain-state correlate and cortical connectivity for frontal gamma oscillations in top-down fashion assessed by auditory steady-state response
Younginha Jung, Eunjin Hwang, Yoon-Kyu Song, Jee Hyun Choi
P186 Neural field model of localized orientation selective activation in V1
James Rankin, Frédéric Chavane
P187 An oscillatory network model of Head direction and Grid cells using locomotor inputs
Karthik Soman, Vignesh Muralidharan, V. Srinivasa Chakravarthy
P188 A computational model of hippocampus inspired by the functional architecture of basal ganglia
Karthik Soman, Vignesh Muralidharan, V. Srinivasa Chakravarthy
P189 A computational architecture to model the microanatomy of the striatum and its functional properties
Sabyasachi Shivkumar, Vignesh Muralidharan, V. Srinivasa Chakravarthy
P190 A scalable cortico-basal ganglia model to understand the neural dynamics of targeted reaching
Vignesh Muralidharan, Alekhya Mandali, B. Pragathi Priyadharsini, Hima Mehta, V. Srinivasa Chakravarthy
P191 Emergence of radial orientation selectivity from synaptic plasticity
Catherine E. Davey, David B. Grayden, Anthony N. Burkitt
P192 How do hidden units shape effective connections between neurons?
Braden A. W. Brinkman, Tyler Kekona, Fred Rieke, Eric Shea-Brown, Michael Buice
P193 Characterization of neural firing in the presence of astrocyte-synapse signaling
Maurizio De Pittà, Hugues Berry, Nicolas Brunel
P194 Metastability of spatiotemporal patterns in a large-scale network model of brain dynamics
James A. Roberts, Leonardo L. Gollo, Michael Breakspear
P195 Comparison of three methods to quantify detection and discrimination capacity estimated from neural population recordings
Gary Marsat, Jordan Drew, Phillip D. Chapman, Kevin C. Daly, Samual P. Bradley
P196 Quantifying the constraints for independent evoked and spontaneous NMDA receptor mediated synaptic transmission at individual synapses
Sat Byul Seo, Jianzhong Su, Ege T. Kavalali, Justin Blackwell
P199 Gamma oscillation via adaptive exponential integrate-and-fire neurons
LieJune Shiau, Laure Buhry, Kanishka Basnayake
P200 Visual face representations during memory retrieval compared to perception
Sue-Hyun Lee, Brandon A. Levy, Chris I. Baker
P201 Top-down modulation of sequential activity within packets modeled using avalanche dynamics
Timothée Leleu, Kazuyuki Aihara
Q28 An auto-encoder network realizes sparse features under the influence of desynchronized vascular dynamics
Ryan T. Philips, Karishma Chhabria, V. Srinivasa Chakravarthy
doi:10.1186/s12868-016-0283-6
PMCID: PMC5001212  PMID: 27534393
3.  Role of Nesfatin-1 in the Reproductive Axis of Male Rat 
Scientific Reports  2016;6:32877.
Nesfatin-1 is an important molecule in the regulation of reproduction. However, its role in the reproductive axis in male animals remains to be understood. Here, we found that nesfatin-1 was mainly distributed in the arcuate nucleus (ARC), paraventricular nucleus (PVN), periventricular nucleus (PeN), and lateral hypothalamic area (LHA) of the hypothalamus; adenohypophysis and Leydig cells in male rats. Moreover, the concentrations of serum nesfatin-1 and its mRNA in hypothalamo-pituitary-gonadal axis (HPGA) vary with the age of the male rat. After intracerebroventricular injection of nesfatin-1, the hypothalamic genes for gonadotrophin releasing hormone (GnRH), kisspeptin (Kiss-1), pituitary genes for follicle-stimulate hormone β(FSHβ), luteinizing hormone β(LHβ), and genes for testicular steroidogenic acute regulatory (StAR) expression levels were decreased significantly. Nesfatin-1 significantly increased the expression of genes for 3β-hydroxysteroid dehydrogenase (3β-HSD), 17β-hydroxysteroid dehydrogenase (17β-HSD), and cytochrome P450 cleavage (P450scc) in the testis of pubertal rats, but their levels decreased in adult rats (P < 0.05), along with the serum FSH, LH, and testosterone (T) concentrations. After nesfatin-1 addition in vitro, T concentrations of the supernatant were significantly higher than that in the control group. These results were suggestive of the role of nesfatin-1 in the regulation of the reproductive axis in male rats.
doi:10.1038/srep32877
PMCID: PMC5013388  PMID: 27599613
4.  Vinpocetine Attenuates the Osteoblastic Differentiation of Vascular Smooth Muscle Cells 
PLoS ONE  2016;11(9):e0162295.
Vascular calcification is an active process of osteoblastic differentiation of vascular smooth muscle cells; however, its definite mechanism remains unknown. Vinpocetine, a derivative of the alkaloid vincamine, has been demonstrated to inhibit the high glucose-induced proliferation of vascular smooth muscle cells; however, it remains unknown whether vinpocetine can affect the osteoblastic differentiation of vascular smooth muscle cells. We hereby investigated the effect of vinpocetine on vascular calcification using a beta-glycerophosphate-induced cell model. Our results showed that vinpocetine significantly reduced the osteoblast-like phenotypes of vascular smooth muscle cells including ALP activity, osteocalcin, collagen type I, Runx2 and BMP-2 expression as well as the formation of mineralized nodule. Vinpocetine, binding to translocation protein, induced phosphorylation of extracellular signal-related kinase and Akt and thus inhibited the translocation of nuclear factor-kappa B into the nucleus. Silencing of translocator protein significantly attenuated the inhibitory effect of vinpocetine on osteoblastic differentiation of vascular smooth muscle cells. Taken together, vinpocetine may be a promising candidate for the clinical therapy of vascular calcification.
doi:10.1371/journal.pone.0162295
PMCID: PMC5010196  PMID: 27589055
5.  Superior Cervical Sympathetic Ganglion: Normal Imaging Appearance on 3T-MRI 
Korean Journal of Radiology  2016;17(5):657-663.
Objective
To identify superior cervical sympathetic ganglion (SCSG) and describe their characteristic MR appearance using 3T-MRI.
Materials and Methods
In this prospective study, we recruited 53 consecutive patients without history of head and neck irradiation. Using anatomic location based on literature review, both sides of the neck were evaluated to identify SCSGs in consensus. SCSGs were divided into definite (medial to internal carotid artery [ICA] and lateral to longus capitis muscle [LCM]) and probable SCSGs based on relative location to ICA and LCM. Two readers evaluated signal characteristics including intraganglionic hypointensity of all SCSGs and relative location of probable SCSGs. Interrater and intrarater agreements were quantified using unweighted kappa.
Results
Ninety-one neck sites in 53 patients were evaluated after exclusion of 15 neck sites with pathology. Definite SCSGs were identified at 66 (73%) sites, and probable SCSGs were found in 25 (27%). Probable SCSGs were located anterior to LCM in 16 (18%), lateral to ICA in 6 (7%), and posterior to ICA in 3 (3%). Intraganglionic hypointensity was identified in 82 (90%) on contrast-enhanced fat-suppressed T1-weighted images. There was no statistical difference in the relative location between definite and probable SCSGs of the right and left sides with intragnalionic hypointensity on difference pulse sequences. Interrater and intrarater agreements on the location and intraganglionic hypointensity were excellent (κ-value, 0.749–1.000).
Conclusion
3T-MRI identified definite SCSGs at 73% of neck sites and varied location of the remaining SCSGs. Intraganglionic hypointensity was a characteristic feature of SCSGs.
doi:10.3348/kjr.2016.17.5.657
PMCID: PMC5007392  PMID: 27587954
Magnetic resonance imaging; Cervical; Neck; Ganglia; Sympathetic; Anatomy; Variation
6.  Histone deacetylase inhibitor, CG200745, attenuates cardiac hypertrophy and fibrosis in DOCA-induced hypertensive rats 
CG200745 is a novel inhibitor of histone deacetylases (HDACs), initially developed for treatment of various hematological and solid cancers. Because it is water-soluble, it can be administered orally. We hypothesized that the HDAC inhibitor, CG200745, attenuates cardiac hypertrophy and fibrosis in deoxycorticosterone acetate (DOCA)-induced hypertensive rats. For establishment of hypertension, 40 mg/kg of DOCA was subcutaneously injected four times weekly into Sprague-Dawley rats. All the rats used in this study including those in the sham group had been unilaterally nephrectomized and allowed free access to drinking water containing 1% NaCl. Systolic blood pressure was measured by the tail-cuff method. Blood chemistry including sodium, potassium, glucose, triglyceride, and cholesterol levels was analyzed. Sections of the heart were visualized after trichrome and hematoxylin and eosin stain. The expression of hypertrophic genes such as atrial natriuretic peptide A (Nppa) and atrial natriuretic peptide B (Nppb) in addition to fibrotic genes such as Collagen-1, Collagen-3, connective tissue growth factor (Ctgf), and Fibronectin were measured by quantitative real-time PCR (qRT-PCR). Injection of DOCA increased systolic blood pressure, heart weight, and cardiac fibrosis, which was attenuated by CG200745. Neither DOCA nor CG200745 affected body weight, vascular contraction and relaxation responses, and blood chemistry. Injection of DOCA increased expression of both hypertrophic and fibrotic genes, which was abrogated by CG200745. These results indicate that CG200745 attenuates cardiac hypertrophy and fibrosis in DOCA-induced hypertensive rats.
doi:10.4196/kjpp.2016.20.5.477
PMCID: PMC5014994  PMID: 27610034
Cardiac fibrosis; Cardiac hypertrophy; CG200745; Deoxycorticosterone acetate (DOCA); Histone deacetylase
7.  Prognosis of Pregnancy-Associated Gastric Cancer: An Age-, Sex-, and Stage-Matched Case-Control Study 
Gut and Liver  2016;10(5):731-738.
Background/Aims
Pregnancy-associated gastric cancer is a rare condition. This case-control study was performed to identify the clinicopathological features and prognostic factors of pregnancy-associated gastric cancer.
Methods
All consecutive patients who presented to our tertiary referral hospital with pregnancy-associated gastric cancer from 1991 to 2012 were identified. Two age-, sex-, and stage-matched controls for each case were also identified from the records. Clinicopathological, gynecological, and oncological outcomes were recorded. Immunohistochemical staining was performed for estrogen receptor, progesterone receptor, epidermal growth factor receptor, human epidermal growth factor receptor, and E-cadherin. Fluorescence in situ hybridization was performed for fibroblast growth factor receptor 2.
Results
The median overall survival rates of the pregnancy-associated gastric cancer and control groups were 7.0 months and 15.0 months, respectively (p=0.189). Poor prognostic factors included advanced stage and tumor location in the corpus or the entire stomach but not pregnancy status or loss of E-cadherin. Pregnancy-associated gastric cancer was associated with a longer time from diagnosis to treatment (21 days vs 7 days, p=0.021). The two groups did not differ in the expression of the receptors or E-cadherin.
Conclusions
The dismal prognosis of pregnancy-associated gastric cancer may related to the tumor stage and location rather than to pregnancy itself.
doi:10.5009/gnl15323
PMCID: PMC5003196  PMID: 27114414
Gastric neoplasms; Pregnancy; Prognosis; E-cadherins
8.  Autoamputation of an ovarian mature cystic teratoma: a case report and a review of the literature 
Background
Torsion is known to be the most frequent complication of ovarian teratomas. Torsion of the adnexa usually manifests with severe abdominal pain and is treated as an acute surgical emergency. However, it may be asymptomatic. Autoamputation of an ovary, along with other adnexal structures, due to previous torsion is extremely rare.
Case presentation
A parasitic ovarian teratoma that underwent torsion, autoamputation, and reimplantation was found incidentally during laparoendoscopic single-site surgery (LESS). The amputated tumor was located in the omentum of the right upper abdomen of a patient with concomitant torsion of a left ovarian teratoma. The right ovary and tube were absent even though she had no surgical history. This finding could be interpreted as an autoamputation of the adnexa due to torsion of a previous ovarian cyst arising from the right ovary. We removed all masses by LESS.
Conclusions
Although both ultrasonography and computed tomography were performed preoperatively in our patient, the correct diagnosis of autoamputation and exact localization of the teratoma were extremely difficult. Physicians should consider the possibility of an autoamputated ovarian cyst even if preoperative radiography shows no calcification.
doi:10.1186/s12957-016-0981-7
PMCID: PMC4989355  PMID: 27535361
Torsion; Ovarian teratoma; Autoamputation
9.  Herbal Medicines for Asthmatic Inflammation: From Basic Researches to Clinical Applications 
Mediators of Inflammation  2016;2016:6943135.
Asthma is one of the most common chronic inflammatory disorders, associated with reversible airflow obstruction, airway hyperresponsiveness, and airway remodeling. This disease has a significant impact on individuals, their families, and society. Standardized therapeutics such as inhaled corticosteroid in combination with long acting β2 agonist have been applied for asthma control; however, complementary and alternative medicines, especially herbal medicines, are still widely used all over the world. A growing body of literature suggests that various herbals or related products might be effective in inhibiting asthmatic inflammation. In this review, we summarize recent advances about the mechanistic studies of herbal medicines on allergic airway inflammation in animal models and their potential application into clinic for asthma control.
doi:10.1155/2016/6943135
PMCID: PMC4958455  PMID: 27478309
10.  Establishing a baseline for literature mining human genetic variants and their relationships to disease cohorts 
Background
The Variome corpus, a small collection of published articles about inherited colorectal cancer, includes annotations of 11 entity types and 13 relation types related to the curation of the relationship between genetic variation and disease. Due to the richness of these annotations, the corpus provides a good testbed for evaluation of biomedical literature information extraction systems.
Methods
In this paper, we focus on assessing performance on extracting the relations in the corpus, using gold standard entities as a starting point, to establish a baseline for extraction of relations important for extraction of genetic variant information from the literature. We test the application of the Public Knowledge Discovery Engine for Java (PKDE4J) system, a natural language processing system designed for information extraction of entities and relations in text, on the relation extraction task using this corpus.
Results
For the relations which are attested at least 100 times in the Variome corpus, we realise a performance ranging from 0.78–0.84 Precision-weighted F-score, depending on the relation. We find that the PKDE4J system adapted straightforwardly to the range of relation types represented in the corpus; some extensions to the original methodology were required to adapt to the multi-relational classification context. The results are competitive with state-of-the-art relation extraction performance on more heavily studied corpora, although the analysis shows that the Recall of a co-occurrence baseline outweighs the benefit of improved Precision for many relations, indicating the value of simple semantic constraints on relations.
Conclusions
This work represents the first attempt to apply relation extraction methods to the Variome corpus. The results demonstrate that automated methods have good potential to structure the information expressed in the published literature related to genetic variants, connecting mutations to genes, diseases, and patient cohorts. Further development of such approaches will facilitate more efficient biocuration of genetic variant information into structured databases, leveraging the knowledge embedded in the vast publication literature.
doi:10.1186/s12911-016-0294-3
PMCID: PMC4959367  PMID: 27454860
Information extraction; Text mining; Genetic variant information; Biocuration
11.  Oviposition by mutualistic seed-consuming pollinators reduces fruit abortion in a recently discovered pollination mutualism 
Scientific Reports  2016;6:29886.
A prerequisite for the evolutionary stability of pollinating seed-consuming mutualisms is that each partner benefits from the association. However, few studies of such mutualism have considered the benefit gained by the pollinators. Here, we determined how the pollinating seed-predators ensure the provisioning of their offspring in the recently discovered mutualism between Rheum nobile and Bradysia flies. The correlation between flower fate and fly oviposition was examined. Floral traits and patterns of variation in fruit abortion and fly oviposition were investigated to determine whether female flies exhibit preferences for particular flowers when laying eggs. Indole-3-acetic acid (IAA) was quantified to determine whether female flies manipulate host physiology. Flowers that flies oviposited on had a significantly lower probability of fruit abortion compared with intact flowers. Females did not exhibit oviposition preference for any of the floral traits examined. There was no significant correlation between fruit abortion and fly oviposition in terms of either flower position or timing of flowering. IAA concentrations in oviposited flowers were significantly higher than in intact flowers. Our results suggest that oviposition by the mutualistic seed-consuming pollinator Bradysia sp., greatly reduces the probability of fruit abortion of its host, R. nobile; this may be attributed to the manipulation of host physiology through regulating IAA levels.
doi:10.1038/srep29886
PMCID: PMC4945934  PMID: 27418228
12.  Comparison of Effect of Two-Hour Exposure to Forest and Urban Environments on Cytokine, Anti-Oxidant, and Stress Levels in Young Adults 
The purpose of this study was to investigate the effect of two-hour exposure to a forest environment on cytokine, anti-oxidant and stress levels among university students and to compare the results to those measured in urban environments. Forty-one subjects were recruited. For our crossover design, subjects were divided into two groups based on similar demographic characteristics. Group A remained in the urban environment and was asked to perform regular breathing for 2 h. Blood samples were collected and the serum levels of cytokines including interleukin-6 (IL-6), IL-8, tumor necrosis factor-α (TNF-α), and glutathione peroxidase (GPx) were examined. Subjects were moved to a small town in a rural area for an equal amount of time to exclude carryover effects, and then remained for another 2 h in a forest environment. The second set of blood samples was collected to assess the effect of exposure to the forest environment. Using the same method, Group B was first exposed to the forest environment, followed by exposure to the urban environment. Blood samples collected after the subjects were exposed to the forest environment showed significantly lower levels of IL-8 and TNF-α compared to those in samples collected after urban environment exposure (10.76 vs. 9.21, t = 4.559, p < 0.001, and 0.97 vs. 0.87, t = 4.130, p < 0.001). The GPx concentration increased significantly after exposure to the forest environment (LnGPx = 5.09 vs. LnGPx = 5.21, t = −2.039, p < 0.05).
doi:10.3390/ijerph13070625
PMCID: PMC4962166  PMID: 27347982
forest; cytokines; glutathione; interleukin; antioxidant; crossover design
13.  Eyedrop Vaccination Induced Systemic and Mucosal Immunity against Influenza Virus in Ferrets 
PLoS ONE  2016;11(6):e0157634.
We investigated eyedrop vaccination (EDV) in pre-clinical development for immunological protection against influenza and for potential side effects involving ocular inflammation and the central nervous system (CNS). Live attenuated influenza EDV, CA07 (H1N1), PZ-4 (H1N2) and Uruguay (H3N2), induced both systemic and mucosal virus-specific antibody responses in ferrets. In addition, EDV resulted in a clinically significant protection against viral challenge, and suppression of viral replication in nasal secretion and lung tissue. Regarding safety, we found that administered EDV flow through the tear duct to reach the base of nasal cavity, and thus do not contact the olfactory bulb. All analyses for potential adverse effects due to EDV, including histological and functional examinations, did not reveal significant side effects. On the basis of these findings, we propose that EDV as effective, while being a safe administration route with minimum local side effects, CNS invasion, or visual function disturbance.
doi:10.1371/journal.pone.0157634
PMCID: PMC4917170  PMID: 27333331
14.  Growth and Pathogenic Potential of Naturally Selected Reassortants after Coinfection with Pandemic H1N1 and Highly Pathogenic Avian Influenza H5N1 Viruses 
Journal of Virology  2015;90(1):616-623.
Coinfection of ferrets with H5N1 and pH1N1 viruses resulted in two predominate genotypes in the lungs containing surface genes of highly pathogenic avian influenza H5N1 virus in the backbone of pandemic H1N1 2009 (pH1N1). Compared to parental strains, these reassortants exhibited increased growth and virulence in vitro and in mice but failed to be transmitted indirectly to naive contact ferrets. Thus, this demonstrates a possible natural reassortment following coinfection as well as the pathogenicity of the potential reassortants.
doi:10.1128/JVI.01572-15
PMCID: PMC4702580  PMID: 26491154
15.  Melanocyte antigen triggers autoimmunity in human psoriasis 
The Journal of Experimental Medicine  2015;212(13):2203-2212.
Arakawa et al. discovered that the autoimmune response in psoriasis is directed against melanocytes. They show that the main psoriasis risk allele HLA-C*06:02 mediates melanocyte-specific autoimmunity and identify ADAMTSL5 as a melanocyte autoantigen, which stimulates IL-17 and IFN-γ production in CD8+ T cells.
Psoriasis vulgaris is a common T cell–mediated inflammatory skin disease with a suspected autoimmune pathogenesis. The human leukocyte antigen (HLA) class I allele, HLA-C*06:02, is the main psoriasis risk gene. Epidermal CD8+ T cells are essential for psoriasis development. Functional implications of HLA-C*06:02 and mechanisms of lesional T cell activation in psoriasis, however, remained elusive. Here we identify melanocytes as skin-specific target cells of an HLA-C*06:02–restricted psoriatic T cell response. We found that a Vα3S1/Vβ13S1 T cell receptor (TCR), which we had reconstituted from an epidermal CD8+ T cell clone of an HLA-C*06:02–positive psoriasis patient specifically recognizes HLA-C*06:02–positive melanocytes. Through peptide library screening, we identified ADAMTS-like protein 5 (ADAMTSL5) as an HLA-C*06:02–presented melanocytic autoantigen of the Vα3S1/Vβ13S1 TCR. Consistent with the Vα3S1/Vβ13S1-TCR reactivity, we observed numerous CD8+ T cells in psoriasis lesions attacking melanocytes, the only epidermal cells expressing ADAMTSL5. Furthermore, ADAMTSL5 stimulation induced the psoriasis signature cytokine, IL-17A, in CD8+ T cells from psoriasis patients only, supporting a role as psoriatic autoantigen. This unbiased analysis of a TCR obtained directly from tissue-infiltrating CD8+ T cells reveals that in psoriasis HLA-C*06:02 directs an autoimmune response against melanocytes through autoantigen presentation. We propose that HLA-C*06:02 may predispose to psoriasis via this newly identified autoimmune pathway.
doi:10.1084/jem.20151093
PMCID: PMC4689169  PMID: 26621454
16.  Exercise-like effects by Estrogen-related receptor-gamma in muscle do not prevent insulin resistance in db/db mice 
Scientific Reports  2016;6:26442.
Dissecting exercise-mimicking pathways that can replicate the benefits of exercise in obesity and diabetes may lead to promising treatments for metabolic disorders. Muscle estrogen-related receptor gamma (ERRγ) is induced by exercise, and when over-expressed in the skeletal muscle mimics exercise by stimulating glycolytic-to-oxidative myofiber switch, mitochondrial biogenesis and angiogenesis in lean mice. The objective of this study was to test whether muscle ERRγ in obese mice mitigates weight gain and insulin resistance. To do so, ERRγ was selectively over-expressed in the skeletal muscle of obese and diabetic db/db mice. Muscle ERRγ over-expression successfully triggered glycolytic-to-oxidative myofiber switch, increased functional mitochondrial content and boosted vascular supply in the db/db mice. Despite aerobic remodeling, ERRγ surprisingly failed to improve whole-body energy expenditure, block muscle accumulation of triglycerides, toxic diacylglycerols (DAG) and ceramides or suppress muscle PKCε sarcolemmal translocation in db/db mice. Consequently, muscle ERRγ did not mitigate impaired muscle insulin signaling or insulin resistance in these mice. In conclusion, obesity and diabetes in db/db mice are not amenable to selective ERRγ-directed programming of classic exercise-like effects in the skeletal muscle. Other biochemical pathways or integrated whole-body effects of exercise may be critical for resisting diabetes and obesity.
doi:10.1038/srep26442
PMCID: PMC4879541  PMID: 27220353
17.  Identifying Liver Cancer and Its Relations with Diseases, Drugs, and Genes: A Literature-Based Approach 
PLoS ONE  2016;11(5):e0156091.
In biomedicine, scientific literature is a valuable source for knowledge discovery. Mining knowledge from textual data has become an ever important task as the volume of scientific literature is growing unprecedentedly. In this paper, we propose a framework for examining a certain disease based on existing information provided by scientific literature. Disease-related entities that include diseases, drugs, and genes are systematically extracted and analyzed using a three-level network-based approach. A paper-entity network and an entity co-occurrence network (macro-level) are explored and used to construct six entity specific networks (meso-level). Important diseases, drugs, and genes as well as salient entity relations (micro-level) are identified from these networks. Results obtained from the literature-based literature mining can serve to assist clinical applications.
doi:10.1371/journal.pone.0156091
PMCID: PMC4873143  PMID: 27195695
18.  Encapsulation of redox polysulphides via chemical interaction with nitrogen atoms in the organic linkers of metal-organic framework nanocrystals 
Scientific Reports  2016;6:25555.
Lithium polysulphides generated during discharge in the cathode of a lithium-sulphur redox cell are important, but their dissolution into the electrolyte from the cathode during each redox cycle leads to a shortened cycle life. Herein, we use in situ spectroelectrochemical measurements to demonstrate that sp2 nitrogen atoms in the organic linkers of nanocrystalline metal-organic framework-867 (nMOF-867) are able to encapsulate lithium polysulphides inside the microcages of nMOF-867, thus helping to prevent their dissolution into the electrolyte during discharge/charge cycles. This encapsulation mechanism of lithiated/delithiated polysulphides was further confirmed by observations of shifted FTIR spectra for the C = N and C-N bonds, the XPS spectra for the Li-N bonds from nMOF-867, and a visualization method, demonstrating that nMOF-867 prevents lithium polysulphides from being dissolved in the electrolyte. Indeed, a cathode fabricated using nMOF-867 exhibited excellent capacity retention over a long cycle life of 500 discharge/charge cycles, with a capacity loss of approximately 0.027% per cycle from a discharge capacity of 788 mAh/g at a high current rate of 835 mA/g.
doi:10.1038/srep25555
PMCID: PMC4857742  PMID: 27149405
19.  Unique Determinants of Neuraminidase Inhibitor Resistance among N3, N7, and N9 Avian Influenza Viruses 
Journal of Virology  2015;89(21):10891-10900.
ABSTRACT
Human infections with avian influenza viruses are a serious public health concern. The neuraminidase (NA) inhibitors (NAIs) are the frontline anti-influenza drugs and are the major option for treatment of newly emerging influenza. Therefore, it is essential to identify the molecular markers of NAI resistance among specific NA subtypes of avian influenza viruses to help guide clinical management. NAI-resistant substitutions in NA subtypes other than N1 and N2 have been poorly studied. Here, we identified NA amino acid substitutions associated with NAI resistance among influenza viruses of N3, N7, and N9 subtypes which have been associated with zoonotic transmission. We applied random mutagenesis and generated recombinant influenza viruses carrying single or double NA substitution(s) with seven internal genes from A/Puerto Rico/8/1934 (H1N1) virus. In a fluorescence-based NA inhibition assay, we identified three categories of NA substitutions associated with reduced inhibition by NAIs (oseltamivir, zanamivir, and peramivir): (i) novel subtype-specific substitutions in or near the enzyme catalytic site (R152W, A246T, and D293N, N2 numbering), (ii) subtype-independent substitutions (E119G/V and/or D and R292K), and (iii) substitutions previously reported in other subtypes (Q136K, I222M, and E276D). Our data show that although some markers of resistance are present across NA subtypes, other subtype-specific markers can only be determined empirically.
IMPORTANCE The number of humans infected with avian influenza viruses is increasing, raising concerns of the emergence of avian influenza viruses resistant to neuraminidase (NA) inhibitors (NAIs). Since most studies have focused on NAI-resistance in human influenza viruses, we investigated the molecular changes in NA that could confer NAI resistance in avian viruses grown in immortalized monolayer cells, especially those of the N3, N7, and N9 subtypes, which have caused human infections. We identified not only numerous NAI-resistant substitutions previously reported in other NA subtypes but also several novel changes conferring reduced susceptibility to NAIs, which are subtype specific. The findings indicate that some resistance markers are common across NA subtypes, but other markers need to be determined empirically for each subtype. The study also implies that antiviral surveillance monitoring could play a critical role in the clinical management of influenza virus infection and an essential component of pandemic preparedness.
doi:10.1128/JVI.01514-15
PMCID: PMC4621141  PMID: 26292325
20.  Mitochondria-Targeted Vitamin E Protects Skin from UVB-Irradiation 
Biomolecules & Therapeutics  2016;24(3):305-311.
Mitochondria-targeted vitamin E (MVE) is designed to accumulate within mitochondria and is applied to decrease mitochondrial oxidative damage. However, the protective effects of MVE in skin cells have not been identified. We investigated the protective effect of MVE against UVB in dermal fibroblasts and immortalized human keratinocyte cell line (HaCaT). In addition, we studied the wound-healing effect of MVE in animal models. We found that MVE increased the proliferation and survival of fibroblasts at low concentration (i.e., nM ranges). In addition, MVE increased collagen production and downregulated matrix metalloproteinase1. MVE also increased the proliferation and survival of HaCaT cells. UVB increased reactive oxygen species (ROS) production in fibroblasts and HaCaT cells, while MVE decreased ROS production at low concentration. In an animal experiment, MVE accelerated wound healing from laser-induced skin damage. These results collectively suggest that low dose MVE protects skin from UVB irradiation. Therefore, MVE can be developed as a cosmetic raw material.
doi:10.4062/biomolther.2015.131
PMCID: PMC4859794  PMID: 26869457
Mitochondria-Targeted vitamin E; UVB protection; Fibroblast; HaCaT; Collagen
21.  Tumor growth suppressive effect of IL-4 through p21-mediated activation of STAT6 in IL-4Rα overexpressed melanoma models 
Oncotarget  2016;7(17):23425-23438.
To evaluate the significance of interleukin 4 (IL-4) in tumor development, we compared B16F10 melanoma growth in IL-4-overespressing transgenic mice (IL-4 mice) and non-transgenic mice. In IL-4 mice, reduced tumor volume and weight were observed when compared with those of non-transgenic mice. Significant activation of DNA binding activity of STAT6, phosphorylation of STAT6 as well as IL-4, IL-4Rα and p21 expression were found in the tumor tissues of IL-4 mice compared to non-transgenic mice. Higher expression of IL-4, STAT6 and p21 in human melanoma tissue compared to normal human skin tissue was also found. Higher expression of apoptotic protein such as cleaved caspase-3, cleaved caspase-8, cleaved caspase-9, Bax, p53 and p21, but lower expression levels of survival protein such as Bcl-2 were found in the tumor of IL-4 mice. In vitro study, we found that overexpression of IL-4 significantly inhibited SK-MEL-28 human melanoma cell and B16F10 murine melanoma cell growth via p21-mediated activation of STAT6 pathway as well as increased expression of apoptotic cell death proteins. Moreover, p21 knockdown with siRNA abolished IL-4 induced activation of STAT6 and expression of p53 and p21 accompanied with reduced IL-4 expression as well as melanoma cell growth inhibition. Therefore, these results showed that IL-4 overexpression suppressed tumor development through p21-mediated activation of STAT6 pathways in melanoma models.
doi:10.18632/oncotarget.8111
PMCID: PMC5029637  PMID: 26993600
IL-4; STAT6; p21; melanoma; tumor growth
22.  How Fast Is Your Body Motion? Determining a Sufficient Frame Rate for an Optical Motion Tracking System Using Passive Markers 
PLoS ONE  2016;11(3):e0150993.
This paper addresses how to determine a sufficient frame (sampling) rate for an optical motion tracking system using passive reflective markers. When using passive markers for the optical motion tracking, avoiding identity confusion between the markers becomes a problem as the speed of motion increases, necessitating a higher frame rate to avoid a failure of the motion tracking caused by marker confusions and/or dropouts. Initially, one might believe that the Nyquist-Shannon sampling rate estimated from the assumed maximal temporal variation of a motion (i.e. a sampling rate at least twice that of the maximum motion frequency) could be the complete solution to the problem. However, this paper shows that also the spatial distance between the markers should be taken into account in determining the suitable frame rate of an optical motion tracking with passive markers. In this paper, a frame rate criterion for the optical tracking using passive markers is theoretically derived and also experimentally verified using a high-quality optical motion tracking system. Both the theoretical and the experimental results showed that the minimum frame rate is proportional to the ratio between the maximum speed of the motion and the minimum spacing between markers, and may also be predicted precisely if the proportional constant is known in advance. The inverse of the proportional constant is here defined as the tracking efficiency constant and it can be easily determined with some test measurements. Moreover, this newly defined constant can provide a new way of evaluating the tracking algorithm performance of an optical tracking system.
doi:10.1371/journal.pone.0150993
PMCID: PMC4788418  PMID: 26967900
23.  Intra-individual variation and short-term temporal trend in DNA methylation of human blood 
Background
Between- and within-person variation in DNA methylation levels are important parameters to be considered in epigenome-wide association studies. Temporal change is one source of within-person variation in DNA methylation that has been linked to aging and disease.
Methods
We analyzed CpG-site-specific intra-individual variation and short-term temporal trend in leukocyte DNA methylation among 24 healthy Chinese women, with blood samples drawn at study entry and after 9 months. Illumina HumanMethylation450 BeadChip was used to measure methylation. Intraclass correlation coefficients (ICC) and trend estimates were summarized by genomic location and probe type.
Results
The median ICC was 0.36 across nonsex chromosomes and 0.80 on the X chromosome. There was little difference in ICC profiles by genomic region and probe type. Among CpG loci with high variability between participants, over 99% had ICC > 0.8. Statistically significant trend was observed in 10.9% CpG loci before adjustment for cell type composition and in 3.4% loci after adjustment.
Conclusions
For CpG loci differentially methylated across subjects, methylation levels can be reliably assessed with one blood sample. More samples per subject are needed for low-variability and unmethylated loci. Temporal changes are largely driven by changes in cell type composition of blood samples, but temporal trend unrelated to cell types is detected in a small percentage of CpG sites.
doi:10.1158/1055-9965.EPI-14-0853
PMCID: PMC4355238  PMID: 25538225
methylation; intra-individual variation; epigenetic drift; effect attenuation
24.  The Role of KV7.3 in Regulating Osteoblast Maturation and Mineralization 
KCNQ (KV7) channels are voltage-gated potassium (KV) channels, and the function of KV7 channels in muscles, neurons, and sensory cells is well established. We confirmed that overall blockade of KV channels with tetraethylammonium augmented the mineralization of bone-marrow-derived human mesenchymal stem cells during osteogenic differentiation, and we determined that KV7.3 was expressed in MG-63 and Saos-2 cells at the mRNA and protein levels. In addition, functional KV7 currents were detected in MG-63 cells. Inhibition of KV7.3 by linopirdine or XE991 increased the matrix mineralization during osteoblast differentiation. This was confirmed by alkaline phosphatase, osteocalcin, and osterix in MG-63 cells, whereas the expression of Runx2 showed no significant change. The extracellular glutamate secreted by osteoblasts was also measured to investigate its effect on MG-63 osteoblast differentiation. Blockade of KV7.3 promoted the release of glutamate via the phosphorylation of extracellular signal-regulated kinase 1/2-mediated upregulation of synapsin, and induced the deposition of type 1 collagen. However, activation of KV7.3 by flupirtine did not produce notable changes in matrix mineralization during osteoblast differentiation. These results suggest that KV7.3 could be a novel regulator in osteoblast differentiation.
doi:10.3390/ijms17030407
PMCID: PMC4813262  PMID: 26999128
KCNQ channels; differentiation; matrix mineralization; glutamate
25.  Suhuang antitussive capsule at lower doses attenuates airway hyperresponsiveness, inflammation, and remodeling in a murine model of chronic asthma 
Scientific Reports  2016;6:21515.
Suhuang antitussive capsule (Suhuang), a traditional Chinese medication, is found effective in treating chronic cough and cough variant asthma (CVA). This study aimed to determine the possible effects and underlying mechanisms of Suhuang on chronic ovalbumin (OVA)-induced airway hyperresponsiveness (AHR), inflammation, and remodeling in mice. Mice were randomly assigned to six experimental groups: control, OVA model with or without Suhuang (low dose: 3.5 g/kg, middle dose: 7.0 g/kg, high dose: 14.0 g/kg), or dexamethasone (2.5 mg/kg). AHR, inflammatory cells, cytokines in bronchoalveolar lavage fluid (BALF), lung pathology, mucus production, and airway remodeling were examined. We found Suhuang treated at lower doses effectively inhibited OVA-induced AHR, airway inflammation, mucus production and collagen deposition around the airway. High dose of Suhuang reduced most of the inflammatory hallmarks while exerted inconsiderable effects on the number of macrophages in BALF and AHR. At all doses, Suhuang significantly reduced the levels of interlukin (IL) -13 and transforming growth factor (TGF)-β1, but had little effects on IL-4, IL-5, IL-17A and interferon (IFN)-γ. Thus, Suhuang administration alleviates the pathological changes of chronic asthma likely through inhibition of IL-13 and TGF-β1. Suhuang might be a promising therapy for patients with allergic asthma in the future.
doi:10.1038/srep21515
PMCID: PMC4748281  PMID: 26861679

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