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List of co-cited articles
47 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


SwissParam: a fast force field generation tool for small organic molecules.
Vincent Zoete, Michel A Cuendet, Aurélien Grosdidier, Olivier Michielin. J Comput Chem 2011
713
44

g_mmpbsa--a GROMACS tool for high-throughput MM-PBSA calculations.
Rashmi Kumari, Rajendra Kumar, Andrew Lynn. J Chem Inf Model 2014
44

Structure of Mpro from SARS-CoV-2 and discovery of its inhibitors.
Zhenming Jin, Xiaoyu Du, Yechun Xu, Yongqiang Deng, Meiqin Liu, Yao Zhao, Bing Zhang, Xiaofeng Li, Leike Zhang, Chao Peng,[...]. Nature 2020
44

Computational Simulations Identify Pyrrolidine-2,3-Dione Derivatives as Novel Inhibitors of Cdk5/p25 Complex to Attenuate Alzheimer's Pathology.
Amir Zeb, Donghwan Kim, Sayed Ibrar Alam, Minky Son, Raj Kumar, Shailima Rampogu, Saravanan Parameswaran, Rahul Mahadev Shelake, Rabia Mukhtar Rana, Shraddha Parate,[...]. J Clin Med 2019
5
60


A Comparative Linear Interaction Energy and MM/PBSA Study on SIRT1-Ligand Binding Free Energy Calculation.
Eko Aditya Rifai, Marc van Dijk, Nico P E Vermeulen, Arry Yanuar, Daan P Geerke. J Chem Inf Model 2019
20
33

Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors.
Linlin Zhang, Daizong Lin, Xinyuanyuan Sun, Ute Curth, Christian Drosten, Lucie Sauerhering, Stephan Becker, Katharina Rox, Rolf Hilgenfeld. Science 2020
33




Boceprevir, GC-376, and calpain inhibitors II, XII inhibit SARS-CoV-2 viral replication by targeting the viral main protease.
Chunlong Ma, Michael Dominic Sacco, Brett Hurst, Julia Alma Townsend, Yanmei Hu, Tommy Szeto, Xiujun Zhang, Bart Tarbet, Michael Thomas Marty, Yu Chen,[...]. Cell Res 2020
258
33

Development and validation of a genetic algorithm for flexible docking.
G Jones, P Willett, R C Glen, A R Leach, R Taylor. J Mol Biol 1997
33

Canonical sampling through velocity rescaling.
Giovanni Bussi, Davide Donadio, Michele Parrinello. J Chem Phys 2007
33

Structural basis for inhibition of the RNA-dependent RNA polymerase from SARS-CoV-2 by remdesivir.
Wanchao Yin, Chunyou Mao, Xiaodong Luan, Dan-Dan Shen, Qingya Shen, Haixia Su, Xiaoxi Wang, Fulai Zhou, Wenfeng Zhao, Minqi Gao,[...]. Science 2020
460
22

SuperDRUG2: a one stop resource for approved/marketed drugs.
Vishal B Siramshetty, Oliver Andreas Eckert, Björn-Oliver Gohlke, Andrean Goede, Qiaofeng Chen, Prashanth Devarakonda, Saskia Preissner, Robert Preissner. Nucleic Acids Res 2018
37
22

Small-molecule library screening by docking with PyRx.
Sargis Dallakyan, Arthur J Olson. Methods Mol Biol 2015
533
22


Plant-derived natural polyphenols as potential antiviral drugs against SARS-CoV-2 via RNA-dependent RNA polymerase (RdRp) inhibition: an in-silico analysis.
Satyam Singh, Md Fulbabu Sk, Avinash Sonawane, Parimal Kar, Sushabhan Sadhukhan. J Biomol Struct Dyn 2021
35
22

Review of the 2019 novel coronavirus (SARS-CoV-2) based on current evidence.
Lisheng Wang, Yiru Wang, Dawei Ye, Qingquan Liu. Int J Antimicrob Agents 2020
344
22


A Novel Coronavirus from Patients with Pneumonia in China, 2019.
Na Zhu, Dingyu Zhang, Wenling Wang, Xingwang Li, Bo Yang, Jingdong Song, Xiang Zhao, Baoying Huang, Weifeng Shi, Roujian Lu,[...]. N Engl J Med 2020
22

An Update on Current Therapeutic Drugs Treating COVID-19.
Renyi Wu, Lujing Wang, Hsiao-Chen Dina Kuo, Ahmad Shannar, Rebecca Peter, Pochung Jordan Chou, Shanyi Li, Rasika Hudlikar, Xia Liu, Zhigang Liu,[...]. Curr Pharmacol Rep 2020
228
22

FDA approved drugs with pharmacotherapeutic potential for SARS-CoV-2 (COVID-19) therapy.
Sylwester Drożdżal, Jakub Rosik, Kacper Lechowicz, Filip Machaj, Katarzyna Kotfis, Saeid Ghavami, Marek J Łos. Drug Resist Updat 2020
50
22

Novel virtual lead identification in the discovery of hematopoietic cell kinase (HCK) inhibitors: application of 3D QSAR and molecular dynamics simulation.
Rohit Bavi, Raj Kumar, Shailima Rampogu, Yongseong Kim, Yong Jung Kwon, Seok Ju Park, Keun Woo Lee. J Recept Signal Transduct Res 2017
9
22

Investigation of novel chemical scaffolds targeting prolyl oligopeptidase for neurological therapeutics.
Raj Kumar, Saravanan Parameswaran, Rohit Bavi, Ayoung Baek, Minky Son, Shailima Rampogu, Chanin Park, Gihwan Lee, Amir Zeb, Shraddha Parate,[...]. J Mol Graph Model 2019
9
22

Computational Simulations Identified Two Candidate Inhibitors of Cdk5/p25 to Abrogate Tau-associated Neurological Disorders.
Amir Zeb, Minky Son, Sanghwa Yoon, Ju Hyun Kim, Seok Ju Park, Keun Woo Lee. Comput Struct Biotechnol J 2019
11
22

Combination of the CHARMM27 force field with united-atom lipid force fields.
Nicolas Sapay, D Peter Tieleman. J Comput Chem 2011
46
22

Putative Inhibitors of SARS-CoV-2 Main Protease from A Library of Marine Natural Products: A Virtual Screening and Molecular Modeling Study.
Davide Gentile, Vincenzo Patamia, Angela Scala, Maria Teresa Sciortino, Anna Piperno, Antonio Rescifina. Mar Drugs 2020
104
22

Rapid Identification of Potential Inhibitors of SARS-CoV-2 Main Protease by Deep Docking of 1.3 Billion Compounds.
Anh-Tien Ton, Francesco Gentile, Michael Hsing, Fuqiang Ban, Artem Cherkasov. Mol Inform 2020
195
22

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit.
Sander Pronk, Szilárd Páll, Roland Schulz, Per Larsson, Pär Bjelkmar, Rossen Apostolov, Michael R Shirts, Jeremy C Smith, Peter M Kasson, David van der Spoel,[...]. Bioinformatics 2013
22

Identification of potential inhibitors of three key enzymes of SARS-CoV2 using computational approach.
Hafsa Iftikhar, Hafiza Nayyer Ali, Sadia Farooq, Hammad Naveed, Syed Shahzad-Ul-Hussan. Comput Biol Med 2020
25
22

Repurposing potential of Ayurvedic medicinal plants derived active principles against SARS-CoV-2 associated target proteins revealed by molecular docking, molecular dynamics and MM-PBSA studies.
Akalesh Kumar Verma, Vikas Kumar, Sweta Singh, Bhabesh Ch Goswami, Ihosvany Camps, Aishwarya Sekar, Sanghwa Yoon, Keun Woo Lee. Biomed Pharmacother 2021
6
33

Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods.
Canrong Wu, Yang Liu, Yueying Yang, Peng Zhang, Wu Zhong, Yali Wang, Qiqi Wang, Yang Xu, Mingxue Li, Xingzhou Li,[...]. Acta Pharm Sin B 2020
830
22

Improved protein-ligand docking using GOLD.
Marcel L Verdonk, Jason C Cole, Michael J Hartshorn, Christopher W Murray, Richard D Taylor. Proteins 2003
22

Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding.
Roujian Lu, Xiang Zhao, Juan Li, Peihua Niu, Bo Yang, Honglong Wu, Wenling Wang, Hao Song, Baoying Huang, Na Zhu,[...]. Lancet 2020
22

ADMET in silico modelling: towards prediction paradise?
Han van de Waterbeemd, Eric Gifford. Nat Rev Drug Discov 2003
921
22

VMD: visual molecular dynamics.
W Humphrey, A Dalke, K Schulten. J Mol Graph 1996
22


Computational Simulations Identified Marine-Derived Natural Bioactive Compounds as Replication Inhibitors of SARS-CoV-2.
Vikas Kumar, Shraddha Parate, Sanghwa Yoon, Gihwan Lee, Keun Woo Lee. Front Microbiol 2021
6
33

PubChem in 2021: new data content and improved web interfaces.
Sunghwan Kim, Jie Chen, Tiejun Cheng, Asta Gindulyte, Jia He, Siqian He, Qingliang Li, Benjamin A Shoemaker, Paul A Thiessen, Bo Yu,[...]. Nucleic Acids Res 2021
223
22

BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinities.
Tiqing Liu, Yuhmei Lin, Xin Wen, Robert N Jorissen, Michael K Gilson. Nucleic Acids Res 2007
931
22

A small molecule compound with an indole moiety inhibits the main protease of SARS-CoV-2 and blocks virus replication.
Shin-Ichiro Hattori, Nobuyo Higashi-Kuwata, Hironori Hayashi, Srinivasa Rao Allu, Jakka Raghavaiah, Haydar Bulut, Debananda Das, Brandon J Anson, Emma K Lendy, Yuki Takamatsu,[...]. Nat Commun 2021
27
22

The N-terminal octapeptide acts as a dimerization inhibitor of SARS coronavirus 3C-like proteinase.
Ping Wei, Keqiang Fan, Hao Chen, Liang Ma, Changkang Huang, Lei Tan, Dong Xi, Chunmei Li, Ying Liu, Aoneng Cao,[...]. Biochem Biophys Res Commun 2006
53
22

Structure-based design of antiviral drug candidates targeting the SARS-CoV-2 main protease.
Wenhao Dai, Bing Zhang, Xia-Ming Jiang, Haixia Su, Jian Li, Yao Zhao, Xiong Xie, Zhenming Jin, Jingjing Peng, Fengjiang Liu,[...]. Science 2020
488
22

SARS-CoV-2: Structure, Biology, and Structure-Based Therapeutics Development.
Mei-Yue Wang, Rong Zhao, Li-Juan Gao, Xue-Fei Gao, De-Ping Wang, Ji-Min Cao. Front Cell Infect Microbiol 2020
97
22

The crystal structures of severe acute respiratory syndrome virus main protease and its complex with an inhibitor.
Haitao Yang, Maojun Yang, Yi Ding, Yiwei Liu, Zhiyong Lou, Zhe Zhou, Lei Sun, Lijuan Mo, Sheng Ye, Hai Pang,[...]. Proc Natl Acad Sci U S A 2003
588
22


The prevalence of symptoms in 24,410 adults infected by the novel coronavirus (SARS-CoV-2; COVID-19): A systematic review and meta-analysis of 148 studies from 9 countries.
Michael C Grant, Luke Geoghegan, Marc Arbyn, Zakaria Mohammed, Luke McGuinness, Emily L Clarke, Ryckie G Wade. PLoS One 2020
199
11

Sars-CoV-2 Envelope and Membrane Proteins: Structural Differences Linked to Virus Characteristics?
Martina Bianchi, Domenico Benvenuto, Marta Giovanetti, Silvia Angeletti, Massimo Ciccozzi, Stefano Pascarella. Biomed Res Int 2020
66
11



Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.