IU Indianapolis ScholarWorks :: Browsing by Author "Chen, Liang"

Browsing by Author "Chen, Liang"

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25th Annual Computational Neuroscience Meeting: CNS-2016
(BioMed Central, 2016-08-18) Sharpee, Tatyana O.; Destexhe, Alain; Kawato, Mitsuo; Sekulić, Vladisla; 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; Ju, Huiwen; Hines, Michael L.; Chen, Liang; Kim, Jimin; Leahy, Will; Shlizerman, Eli; Birgolias, Justas; Gerkin, Richard C.; Crook, Sharon M.; Viriyopase, Atthaphon; Memmeshei, Raol-Martin; Dabaghian, Yuri; DeVuti, Justin; Perotti, Luca; Kim, Ammo J.; Fenk, Lisa M.; Lyu, Cheng; Malmon, Gabby; Zhao, Chang; Widmer, Yves; Sprecher, Simon; Halnes, Geir; Tuomo, Maki-Martun; Keller, Daniel; Petterson, Klas H.; Andreassen, Ole A.; Elnevoll, Gaute T.; Yamada, Yasnori; Steyn-Ross, Moira L.; Steyn-Ross, D. Alistair; Meijas, Jorge F.; Murray, John D.; Kennedy, Henry; Kruscha, Alexandra; Grewe, Jan; Lidner, Benjamin; Badel, Laurent; Kasumi, Ohta; 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; Merriosn-Hort, Robert; Borisyuk, Roman; Kim, Chang Sub; Tezuka, Taro; Joo, Pangyu; Young-Ah, Rho; Burton, Shawn D.; Bard, G.; Marsalek, Petr; Kim, Hoon-Hee; Moon, Seok-hun; Lee, Do-won; Molkov, Yaroslav I.; Hamade, Khaldoun; Teka, Wondimu; Barnett, William H.; Kim, Taegyo; Markin, Sergey; Rybak, Ilya A.; Forrow, Csaba; Demutz, Harald; Demkó, László; Vörös, János; Dabaghian, Yuri; Babichev, Andrey; Huang, Haiping; Metzner, Christoph; Schwikard, Achim; Zurowski, Bartosz; Roach, James P.; Sander, Leonard M.; Zochowski, Michal R.; Skilling, Quinton M.; Ognjanovski, Nicolette; Aton, Sara J.; Zochowski, Michal; Wang, Sheng-Ju; Ouyang, Guang; Zhang, Mingsha; Wong, Michael; Zhou, Changsong; Robinson, Peter A.; Sanz-Leon, Paula; Drysdale, Peter M.; Fung, Felix; Abeysuriya, Romesh G.; Rennle, Chris J.; Zhao, Xuelong; Choe, Yoonsuck; Yang, Huei-Fang; Mi, Yuanyuan; Lin, Xiahoan; Wu, Si; Liedtke, Joscha; Schottdorf, Manual; Wolf, Fred; Yamamura, Yorkio; Wickens, Jeffery R.; Rumbell, Timothy; Ramsey, Julia; Reyes, Amy; Draguljić, Daniel; 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.; Giese, Martin; Kuravi, Pradeep; Vogels, Rufin; Seeholzer, Alexander; Podlaski, William; Ranjan, Rajnish; Vogels, Tim; Torres, Joaquin J.; Baroni, Fabiano; Latorre, Roberto; Varona, Pablo; Gips, Bart; Lowet, Eric; Roberts, Mark J.; de Weerd, Peter; Jensen, Ole; van der Eerden, Jan; Goodarzinic, Abdorreza; Niry, Mohammad; Valizadeh, Alireza; Pariz, Aref; Parsi, Shervin S.; Valizadeh, Alireza; Warburton, Julia M.; Marucci, Lucia; Tamagnini, Francesco; Brown, John; 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.; Trisch, Jochen; Zaptocky, 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; Kiser, Seth A.; Howard Jr., James H.; Tang, Yi-Yuan; Goncharenko, Julia; Davey, Neil; Schilstra, Marla; Steuber, Volker; Voronenko, Sergej O.; Linder, Benjamin; Ahamed, Tosif; Stephens, Greg; Yger, Pierre; Lefebvre, Baptiste; Spampinato, Giulia Lia Beatrice; Esposito, Elric; Stimberg, Marcel; Marre, Olivier; Choi, Hansol; Song, Min-Ho; Chung, SueYeon; Lee, Dan D.; Sompolinsky, Haim; Phillips, Ryan S.; Smith, Jeffrey; Chatzikalymniou, Alexandra Pierri; Ferguson, Katie; Skinner, Frances K.; Gajic, N. Alex Cayco; Clopath, Claudia; Silver, R. Angus; Gleeson, Padraig; Marin, Boris; Sadeh, Sadra; Quintana, Adrian; Cantarelli, Matteo; Dura‑Bernal, Salvador; Lytton, William W.; Davison, Andrew; Silver, Angus; Li, Luozheng; Zhang, Wenhao; Mi, Yuanyuan; Wang, Dahui; Wu, Sl; Song, Youngjo; Park, Sol; Choi, Ilhwan; Jeong, Jaeseung; Shin, Hee‑sup; Choi, Hannah; Pasupathy, Anitha; Shea-Brown, Eric; Huh, Dongsung; Sejnowski, Terrence J.; Vogt, Simon M.; Kumar, Arvind; Schmidt, Robert; Werdt, Stephen Van; Schiff, Steven J.; Veale, Richard; Scheutz, Matthias; Lee, Sang Wan; Gallinaro, Júlia; Rotter, Stefan; Sanz‑Leon, Paula; Robinson, Peter A.; Rubchinsky, Leonid L.; Cheung, Chung Ching; Ratnadurai‑Giridharan, Shivakeshavan; Shomali, Safura Rashid; Ahmadabadi, Majid Nili; Shimazaki, Hideaki; Rasuli, Nader; Zhao, Xiaochen; Rasch, Malte J.; Witting, Jens; Priesemann, Viola; Levina, Anna; Priesemann, Viola; Lizler, Joseph T.; Spinney, Richard E.; Rubinov, Mikail; Wibral, Michael; Bak, Ji Hyun; Pillow, Jonathan; Zaho, Yuan; Park, Memming; Kang, Jiyoung; Park, Hae‑Jeong; Jang, Jaeson; Paik, Se-Bum; Choi, Woochul; Lee, Changju; Jang, Jaeson; Paik, Se‑Bum; Song, Min; Lee, Hyeonsu; Yilmaz, Ergin; Baysal, Velt; Ozer, Mahmut; Koren, Veronika; Obermayer, Klaus; Saska, Daniel; Nowotny, Thomas; Chan, Ho Ka; Diamond, Alan; Hermann, Christoph S.; Murray, Micha M.; Ionta, Silvlo; Hutt, Axel; Lefebvre, Jérémie; Weidel, Philipp; Duarte, Renato; Morrison, Abigail; Iyer, Ramakrishnan; Mihalas, Stefan; 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.; Grayden, David B.; Kerr, Robert R.; Tahayori, Bahman; Meffin, Hamish; Moezzi, Bahar; Iannella, Nicolangelo; McDonnell, Mark D.; Nolte, Max; Reimann, Michael W.; Muler, Eilif; Markram, Henry; Parziale, Antonio; Senatore, Rosa; Marcelli, Angelo; Maouene, M.; Skiker, K.; Neymotin, Samuel A.; Dura‑Bernal, Salvador; Seidenstein, Alexandra; Lakatos, Peter; Sanger, Terence D.; Lytton, William W.; Dura‑Bernal, Salvador; Menzies, Rosemary J.; McLauchlan, Campbell; van Albada, Sacha J.; Kedziora, David J.; Neymotin, Samuel; Kerr, Cliff C.; Ryu, Juhyoung; Lee, Sang-Hun; Lee, Joonwon; Lee, Hyang Jung; Lim, Daeseob; Lee, Jung H.; Wang, Jisung; Lee, Heonsoo; Jung, Nam; Quang, Le Anh; Maeng, Seung Eu; 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; Kwag, Jeehyun; Liang, Guangsheng; Jang, Hyun Jae; Filipovi, Marko; Reig, Ramon; Aertsen, Ad; Silberberg, Gilad; Kumar, Arvind; 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; Lee, Chungho; Kim, Sung-Phil; Spiegler, Andreas; Petkoski, Spase; Palva, Matias J.; Jirsa, Viktor K.; Saggio, Maria L.; Siep, Silvan F.; Stacey, William C.; Bernard, Christophe; Choung, Oh‑hyeon; Jeong, Yong; Lee, Yong‑il; Jeong, Jaesung; Kim, Su Hyun; Lee, Jeungmin; Kwon, Jaehyung; Kralik, Jerald D.; Hwang, Dong‑Uk; Park, Sang-Min; Kim, Seongkyun; Kim, Hyoungkyu; Lim, Sewoong; Yoon, Sangsup; Park, Choongseok; Miller, Thomas; Clements, Katie; Hye Jr., Eoon; 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.; Kameneva, Tatiana; Graham, Bruce P.; Kale, Penelope J.; Gollo, Leonardo L.; Stern, Merav; Abbott, L.F.; Fedorov, Leonid A.; Giese, Martin A.; Ardestani, Mohammad Hovaidi; Giese, Martin; Chakravarthy, V.Srinivasa; Chhabria, Karishma; Philips, Ryan T.; Ardestani, Mohammad Hovaidi; Faraji, Mohammad Java; Preuschoff, Kerstin; Gerstner, Wulfram; 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.; Stacey, William C.; Holman, Katherine A.; Fink, Christian G.; Kim, Jinseop; Mu, Shang; Briggman, Kevin L; Seung, H. Sebastian; Wegener, Detlef; Bohnenkamp, Lisa; Ernst, Udo A.; Mäki‑Marttunen, Tuomo; Halnes, Geir; Devor, Anna; Dale, Anders M.; Andreassen, Ole A.; Einevoll, Gaute T.; Hagen, Espen; Lines, Glenn T.; Edwards, Andy; Tveito, Aslak; Senk, Johanna; van Albada, Sacha J; Diesmann, Markus; Schmidt, Maximilian; Bakker, Rembrandt; Shen, Kelly; Bezgin`, Gleb; Hilgetag`, Claus‑Christian; 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; Schutter, Erik De; Chen, Weiliang; Hong, Sungho; Takashima, Akira; Zamora, Criseida; Gallimore, Andrew R.; Karoly, Philippa J.; Freestone, Dean R.; Soundry, Daniel; Kuhlmann, Levin; Paninski, Liam; Cook, Mark; Lee, Jaejin; Fishman, Yonatan I.; Cohen, Yale E.; Cocchi, Luca; Sweeney, Yann; Lee, Soohyun; Jung, Woo-Sung; Kim, Bowon; Kim, Youngsoo; Jung, Younginha; Rankin, James; Chavane, Frédéric; Soman, Karthik; Muralidharan, Vignesh; Shivkumar, Sabyasach; Mandall, Alekhya; Priyadharsini, B. Praga; Mehta, Hima; Brinkman, Braden A.; Kekona, Tyler; Rieke, Fred; Shea‑Brown, Eric; Buice, Michael; Pittà, Maurizio De; Berry, Hugues; Brunel, Nicolas; Breakspear, Michael; Marsat, Gary; Drew, Jordan; Chapman, Phillip D.; Daly, Kevin C.; Bradley, Samual P.; Seo, Sat Byul; Su, Jianzhong; Kavalali, Enge T.; Blackwell, Justin; Shiau, LieJune; Buhry, Laure; Basnayake, Kanishka; Lee, Sue-Hyun; Levy, Brandon A.; Baker, Chris I.; Leleu, Timothée; Aihara, Kazuyuki; Department of Mathematical Sciences, School of Science
mTOR SIGNALING MEDIATES TBI-ENHANCED NEURAL STEM CELL PROLIFERAION
(Office of the Vice Chancellor for Research, 2012-04-13) Seekaew, Pich; Chen, Liang; Gao, Xiang; Chen, Jinhui
Traumatic Brain Injury (TBI) induced neuron death was once thought to be irreversible. However, the identification of neural stem cells (NSCs) in the adult brain holds the hope of repairing injured brain following TBI. Our pre-vious study showed that TBI promotes NSC proliferation in an attempt to ini-tial an innate repair and/or plasticity mechanisms. However, this induced proliferation is transient without significantly increasing neurogenesis. It suggests that additional intervention is required to further increase NSC pro-liferation to enhance neurogenesis for successfully repairing the damaged brain following TBI. In order to determine the molecular mechanism that mediates TBI-enhanced NSC proliferation, we assessed the activity of mam-malian target of rapamycin (mTOR) signaling by detecting the level of Phospho-S6 Ribosomal protein (pS6), an indicator of the activity of mTOR signaling. We found that the level of pS6 was transient but dramatically in-creased prior to TBI-enhanced NSC proliferation. In contrast inhibiting the activity of mTOR signaling with rapamycin attenuated this effect, indicating that mTOR signaling mediates TBI-enhanced NSC proliferation. Further stimulating mTOR signaling strengthened the effect of TBI-enhanced NSC proliferation. These results suggest that mTOR signaling mediates TBI-enhanced neural stem cell proliferation and stimulating mTOR signaling may be a potential therapeutic approach to enhance neurogenesis for post-traumatic functional recovery.
The Small-Molecule TrkB Agonist 7, 8-Dihydroxyflavone Decreases Hippocampal Newborn Neuron Death After Traumatic Brain Injury
(Ovid Technologies (Wolters Kluwer) - Lippincott Williams & Wilkins, 2015-06) Chen, Liang; Gao, Xiang; Zhao, Shu; Hu, Weipeng; Chen, Jinhui; Department of Neurological Surgery, IU School of Medicine
Previous studies in rodents have shown that after a moderate traumatic brain injury (TBI) with a controlled cortical impact (CCI) device, the adult-born immature granular neurons in the dentate gyrus are the most vulnerable cell type in the hippocampus. There is no effective approach for preventing immature neuron death after TBI. We found that tyrosine-related kinase B (TrkB), a receptor of brain-derived neurotrophic factor (BDNF), is highly expressed in adult-born immature neurons. We determined that the small molecule imitating BDNF, 7, 8-dihydroxyflavone (DHF), increased phosphorylation of TrkB in immature neurons both in vitro and in vivo. Pretreatment with DHF protected immature neurons from excitotoxicity-mediated death in vitro, and systemic administration of DHF before moderate CCI injury reduced the death of adult-born immature neurons in the hippocampus 24 hours after injury. By contrast, inhibiting BDNF signaling using the TrkB antagonist ANA12 attenuated the neuroprotective effects of DHF. These data indicate that DHF may be a promising chemical compound that promotes immature neuron survival after TBI through activation of the BDNF signaling pathway.
The bioinformatics toolbox for circRNA discovery and analysis
(Oxford University Press, 2021) Chen, Liang; Wang, Changliang; Sun, Huiyan; Wang, Juexin; Lian, Yanchun; Wang, Yan; Wong, Garry; Biomedical Engineering and Informatics, Luddy School of Informatics, Computing, and Engineering
Circular RNAs (circRNAs) are a unique class of RNA molecule identified more than 40 years ago which are produced by a covalent linkage via back-splicing of linear RNA. Recent advances in sequencing technologies and bioinformatics tools have led directly to an ever-expanding field of types and biological functions of circRNAs. In parallel with technological developments, practical applications of circRNAs have arisen including their utilization as biomarkers of human disease. Currently, circRNA-associated bioinformatics tools can support projects including circRNA annotation, circRNA identification and network analysis of competing endogenous RNA (ceRNA). In this review, we collected about 100 circRNA-associated bioinformatics tools and summarized their current attributes and capabilities. We also performed network analysis and text mining on circRNA tool publications in order to reveal trends in their ongoing development.
Warburg Effects in Cancer and Normal Proliferating Cells: Two Tales of the Same Name
(Elsevier, 2019) Sun, Huiyan; Chen, Liang; Cao, Sha; Liang, Yanchun; Xu, Ying; Biostatistics, School of Public Health
It has been observed that both cancer tissue cells and normal proliferating cells (NPCs) have the Warburg effect. Our goal here is to demonstrate that they do this for different reasons. To accomplish this, we have analyzed the transcriptomic data of over 7000 cancer and control tissues of 14 cancer types in TCGA and data of five NPC types in GEO. Our analyses reveal that NPCs accumulate large quantities of ATPs produced by the respiration process before starting the Warburg effect, to raise the intracellular pH from ∼6.8 to ∼7.2 and to prepare for cell division energetically. Once cell cycle starts, the cells start to rely on glycolysis for ATP generation followed by ATP hydrolysis and lactic acid release, to maintain the elevated intracellular pH as needed by cell division since together the three processes are pH neutral. The cells go back to the normal respiration-based ATP production once the cell division phase ends. In comparison, cancer cells have reached their intracellular pH at ∼7.4 from top down as multiple acid-loading transporters are up-regulated and most acid-extruding ones except for lactic acid exporters are repressed. Cancer cells use continuous glycolysis for ATP production as way to acidify the intracellular space since the lactic acid secretion is decoupled from glycolysis-based ATP generation and is pH balanced by increased expressions of acid-loading transporters. Co-expression analyses suggest that lactic acid secretion is regulated by external, non-pH related signals. Overall, our data strongly suggest that the two cell types have the Warburg effect for very different reasons.

Browsing by Author "Chen, Liang"

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