Laying in silico pipelines for drug repositioning: a paradigm in ensemble analysis for neurodegenerative diseases

被引:15
作者
Dovrolis, Nikolas [1 ]
Kolios, George [1 ]
Spyrou, George [2 ]
Maroulakou, Loanna [3 ]
机构
[1] Democritus Univ Thrace, Pharmacol Lab, Dept Med, Xanthi, Greece
[2] Cyprus Inst Neurol & Genet, Bioinformat ERA Chair, Nicosia, Cyprus
[3] Democritus Univ Thrace, Dept Mol Biol & Genet, Xanthi, Greece
关键词
GENE-EXPRESSION; ALZHEIMERS-DISEASE; INHIBITOR; PATHWAYS; THERAPY; REGIONS; BETA; POLYPHARMACOLOGY; IDENTIFICATION; SIGNATURES;
D O I
10.1016/j.drudis.2017.03.009
中图分类号
R9 [药学];
学科分类号
1007 ;
摘要
When faced with time-and money-consuming problems, new practices in pharmaceutical R&D arose when trying to alleviate them. Drug repositioning has great promise and when combined with today's computational power and intelligence it becomes more precise and potent. This work showcases current approaches of creating a computational pipeline for drug repositioning, along with an extensive example of how researchers can influence therapeutic approaches and further understanding, through either single or multiple disease studies. This paradigm is based on three neurodegenerative diseases with pathophysiological similarities. It is our goal to provide the readers with all the information needed to enrich their research and note expectations along the way.
引用
收藏
页码:805 / 813
页数:9
相关论文
共 77 条
[1]   Identification of Nitazoxanide as a Group I Metabotropic Glutamate Receptor Negative Modulator for the Treatment of Neuropathic Pain: An In Silico Drug Repositioning Study [J].
Ai, Ni ;
Wood, Richard D. ;
Welsh, William J. .
PHARMACEUTICAL RESEARCH, 2015, 32 (08) :2798-2807
[2]   Deep Learning Applications for Predicting Pharmacological Properties of Drugs and Drug Repurposing Using Transcriptomic Data [J].
Aliper, Alexander ;
Plis, Sergey ;
Artemov, Artem ;
Ulloa, Alvaro ;
Mamoshina, Polina ;
Zhavoronkov, Alex .
MOLECULAR PHARMACEUTICS, 2016, 13 (07) :2524-2530
[3]   Off-Target drug effects resulting in altered gene expression events with epigenetic and "Quasi-Epigenetic" origins [J].
Anderson, Stephen J. ;
Feye, Kristina M. ;
Schmidt-McCormack, Garrett R. ;
Malovic, Emir ;
Mlynarczyk, Gregory S. A. ;
Izbicki, Patricia ;
Arnold, Larissa F. ;
Jefferson, Matthew A. ;
de la Rosa, Bierlein M. ;
Wehrman, Rita F. ;
Luna, K. C. ;
Hu, Hilary Z. ;
Kondru, Naveen C. ;
Kleinhenz, Michael D. ;
Smith, Joe S. ;
Manne, Sireesha ;
Putra, Marson R. ;
Choudhary, Shivani ;
Massey, Nyzil ;
Luo, Diou ;
Berg, Carrie A. ;
Acharya, Sreemoyee ;
Sharma, Shaunik ;
Kanuri, Sri Harsha ;
Lange, Jennifer K. ;
Carlson, Steve A. .
PHARMACOLOGICAL RESEARCH, 2016, 107 :229-233
[4]   The $2.6 Billion Pill - Methodologic and Policy Considerations [J].
Avorn, Jerry .
NEW ENGLAND JOURNAL OF MEDICINE, 2015, 372 (20) :1877-1879
[5]  
Bechhofer S., 2009, ENCY DATABASE SYSTEM, P2008, DOI DOI 10.1007/978-0-387-39940-9_1073
[6]   Drug-repositioning screening identified piperlongumine as a direct STAT3 inhibitor with potent activity against breast cancer [J].
Bharadwaj, U. ;
Eckols, T. K. ;
Kolosov, M. ;
Kasembeli, M. M. ;
Adam, A. ;
Torres, D. ;
Zhang, X. ;
Dobrolecki, L. E. ;
Wei, W. ;
Lewis, M. T. ;
Dave, B. ;
Chang, J. C. ;
Landis, M. D. ;
Creighton, C. J. ;
Mancini, M. A. ;
Tweardy, D. J. .
ONCOGENE, 2015, 34 (11) :1341-1353
[7]   Microarray analyses of laser-captured hippocampus reveal distinct gray and white matter signatures associated with incipient Alzheimer's disease [J].
Blalock, Eric M. ;
Buechel, Heather M. ;
Popovic, Jelena ;
Geddes, James W. ;
Landfield, Philip W. .
JOURNAL OF CHEMICAL NEUROANATOMY, 2011, 42 (02) :118-126
[8]   ArrayExpress - a public repository for microarray gene expression data at the EBI [J].
Brazma, A ;
Parkinson, H ;
Sarkans, U ;
Shojatalab, M ;
Vilo, J ;
Abeygunawardena, N ;
Holloway, E ;
Kapushesky, M ;
Kemmeren, P ;
Lara, GG ;
Oezcimen, A ;
Rocca-Serra, P ;
Sansone, SA .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :68-71
[9]   Drug target identification using side-effect similarity [J].
Campillos, Monica ;
Kuhn, Michael ;
Gavin, Anne-Claude ;
Jensen, Lars Juhl ;
Bork, Peer .
SCIENCE, 2008, 321 (5886) :263-266
[10]   Characterization of single-nucleotide polymorphisms in coding regions of human genes [J].
Cargill, M ;
Altshuler, D ;
Ireland, J ;
Sklar, P ;
Ardlie, K ;
Patil, N ;
Lane, CR ;
Lim, EP ;
Kalyanaraman, N ;
Nemesh, J ;
Ziaugra, L ;
Friedland, L ;
Rolfe, A ;
Warrington, J ;
Lipshutz, R ;
Daley, GQ ;
Lander, ES .
NATURE GENETICS, 1999, 22 (03) :231-238