A citation-based method for searching scientific literature

Debasis Mitra, Devvret Verma, Bhaswatimayee Mahakur, Anshul Kamboj, Rakesh Srivastava, Sugam Gupta, Ajita Pandey, Bhawna Arora, Kumud Pant, P Panneerselvam, Arabinda Ghosh, Durga P Barik, Pradeep K Das Mohapatra. J Biomol Struct Dyn 2021
Times Cited: 6







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



Times Cited
  Times     Co-cited
Similarity


g_mmpbsa--a GROMACS tool for high-throughput MM-PBSA calculations.
Rashmi Kumari, Rajendra Kumar, Andrew Lynn. J Chem Inf Model 2014
50

PRODRG: a tool for high-throughput crystallography of protein-ligand complexes.
Alexander W Schüttelkopf, Daan M F van Aalten. Acta Crystallogr D Biol Crystallogr 2004
50

Molecular docking of potential SARS-CoV-2 papain-like protease inhibitors.
Daoqun Li, Junwen Luan, Leiliang Zhang. Biochem Biophys Res Commun 2021
10
50


AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility.
Garrett M Morris, Ruth Huey, William Lindstrom, Michel F Sanner, Richard K Belew, David S Goodsell, Arthur J Olson. J Comput Chem 2009
33

A biomolecular force field based on the free enthalpy of hydration and solvation: the GROMOS force-field parameter sets 53A5 and 53A6.
Chris Oostenbrink, Alessandra Villa, Alan E Mark, Wilfred F van Gunsteren. J Comput Chem 2004
33

UCSF Chimera--a visualization system for exploratory research and analysis.
Eric F Pettersen, Thomas D Goddard, Conrad C Huang, Gregory S Couch, Daniel M Greenblatt, Elaine C Meng, Thomas E Ferrin. J Comput Chem 2004
33

The SARS-coronavirus papain-like protease: structure, function and inhibition by designed antiviral compounds.
Yahira M Báez-Santos, Sarah E St John, Andrew D Mesecar. Antiviral Res 2015
353
33

Open Babel: An open chemical toolbox.
Noel M O'Boyle, Michael Banck, Craig A James, Chris Morley, Tim Vandermeersch, Geoffrey R Hutchison. J Cheminform 2011
33


Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China.
Chaolin Huang, Yeming Wang, Xingwang Li, Lili Ren, Jianping Zhao, Yi Hu, Li Zhang, Guohui Fan, Jiuyang Xu, Xiaoying Gu,[...]. Lancet 2020
33

Roles of flavonoids against coronavirus infection.
Maria Russo, Stefania Moccia, Carmela Spagnuolo, Idolo Tedesco, Gian Luigi Russo. Chem Biol Interact 2020
75
33

Identification of phytochemical inhibitors against main protease of COVID-19 using molecular modeling approaches.
Anuj Kumar, Gourav Choudhir, Sanjeev Kumar Shukla, Mansi Sharma, Pankaj Tyagi, Arvind Bhushan, Madhu Rathore. J Biomol Struct Dyn 2021
60
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


Structure of papain-like protease from SARS-CoV-2 and its complexes with non-covalent inhibitors.
Jerzy Osipiuk, Saara-Anne Azizi, Steve Dvorkin, Michael Endres, Robert Jedrzejczak, Krysten A Jones, Soowon Kang, Rahul S Kathayat, Youngchang Kim, Vladislav G Lisnyak,[...]. Nat Commun 2021
53
33

Molecular properties that influence the oral bioavailability of drug candidates.
Daniel F Veber, Stephen R Johnson, Hung-Yuan Cheng, Brian R Smith, Keith W Ward, Kenneth D Kopple. J Med Chem 2002
33

Moroccan Medicinal plants as inhibitors against SARS-CoV-2 main protease: Computational investigations.
I Aanouz, A Belhassan, K El-Khatabi, T Lakhlifi, M El-Ldrissi, M Bouachrine. J Biomol Struct Dyn 2021
133
33

Peptide-like and small-molecule inhibitors against Covid-19.
Suyash Pant, Meenakshi Singh, V Ravichandiran, U S N Murty, Hemant Kumar Srivastava. J Biomol Struct Dyn 2021
153
33

Reverse vaccinology approach to design a novel multi-epitope vaccine candidate against COVID-19: an in silico study.
Maryam Enayatkhani, Mehdi Hasaniazad, Sobhan Faezi, Hamed Gouklani, Parivash Davoodian, Nahid Ahmadi, Mohammad Ali Einakian, Afsaneh Karmostaji, Khadijeh Ahmadi. J Biomol Struct Dyn 2021
104
33


Discovery of potential multi-target-directed ligands by targeting host-specific SARS-CoV-2 structurally conserved main protease.
Rakesh S Joshi, Shounak S Jagdale, Sneha B Bansode, S Shiva Shankar, Meenakshi B Tellis, Vaibhav Kumar Pandya, Anita Chugh, Ashok P Giri, Mahesh J Kulkarni. J Biomol Struct Dyn 2021
139
33

The Protein Data Bank.
H M Berman, J Westbrook, Z Feng, G Gilliland, T N Bhat, H Weissig, I N Shindyalov, P E Bourne. Nucleic Acids Res 2000
33


The complete sequence (22 kilobases) of murine coronavirus gene 1 encoding the putative proteases and RNA polymerase.
H J Lee, C K Shieh, A E Gorbalenya, E V Koonin, N La Monica, J Tuler, A Bagdzhadzhyan, M M Lai. Virology 1991
324
16

ZINC 15--Ligand Discovery for Everyone.
Teague Sterling, John J Irwin. J Chem Inf Model 2015
909
16

The coronavirus macrodomain is required to prevent PARP-mediated inhibition of virus replication and enhancement of IFN expression.
Matthew E Grunewald, Yating Chen, Chad Kuny, Takashi Maejima, Robert Lease, Dana Ferraris, Masanori Aikawa, Christopher S Sullivan, Stanley Perlman, Anthony R Fehr. PLoS Pathog 2019
70
16



VMD: visual molecular dynamics.
W Humphrey, A Dalke, K Schulten. J Mol Graph 1996
16

In silico identification and validation of natural antiviral compounds as potential inhibitors of SARS-CoV-2 methyltransferase.
Anshuman Chandra, Meenakshi Chaudhary, Imteyaz Qamar, Nagendra Singh, Vikrant Nain. J Biomol Struct Dyn 2021
8
16


Origin and evolution of pathogenic coronaviruses.
Jie Cui, Fang Li, Zheng-Li Shi. Nat Rev Microbiol 2019
16


Biochemical characterization of protease activity of Nsp3 from SARS-CoV-2 and its inhibition by nanobodies.
Lee A Armstrong, Sven M Lange, Virginia Dee Cesare, Stephen P Matthews, Raja Sekhar Nirujogi, Isobel Cole, Anthony Hope, Fraser Cunningham, Rachel Toth, Rukmini Mukherjee,[...]. PLoS One 2021
7
16

Crystal structures of SARS-CoV-2 ADP-ribose phosphatase: from the apo form to ligand complexes.
Karolina Michalska, Youngchang Kim, Robert Jedrzejczak, Natalia I Maltseva, Lucy Stols, Michael Endres, Andrzej Joachimiak. IUCrJ 2020
48
16


SARS-CoV-2 orf1b Gene Sequence in the NTNG1 Gene on Human Chromosome 1.
Steven Lehrer, Peter H Rheinstein. In Vivo 2020
4
25

DrugBank 5.0: a major update to the DrugBank database for 2018.
David S Wishart, Yannick D Feunang, An C Guo, Elvis J Lo, Ana Marcu, Jason R Grant, Tanvir Sajed, Daniel Johnson, Carin Li, Zinat Sayeeda,[...]. Nucleic Acids Res 2018
16


Structural insights into natural compounds as inhibitors of Fasciola gigantica thioredoxin glutathione reductase.
Rohit Shukla, Harish Shukla, Parismita Kalita, Timir Tripathi. J Cell Biochem 2018
24
16

The ADP-ribose-1''-monophosphatase domains of severe acute respiratory syndrome coronavirus and human coronavirus 229E mediate resistance to antiviral interferon responses.
Thomas Kuri, Klara K Eriksson, Akos Putics, Roland Züst, Eric J Snijder, Andrew D Davidson, Stuart G Siddell, Volker Thiel, John Ziebuhr, Friedemann Weber. J Gen Virol 2011
61
16



Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1''-phosphate dephosphorylation by a conserved domain of nsP3.
Kumar Singh Saikatendu, Jeremiah S Joseph, Vanitha Subramanian, Tom Clayton, Mark Griffith, Kin Moy, Jeffrey Velasquez, Benjamin W Neuman, Michael J Buchmeier, Raymond C Stevens,[...]. Structure 2005
136
16

A new coronavirus associated with human respiratory disease in China.
Fan Wu, Su Zhao, Bin Yu, Yan-Mei Chen, Wen Wang, Zhi-Gang Song, Yi Hu, Zhao-Wu Tao, Jun-Hua Tian, Yuan-Yuan Pei,[...]. Nature 2020
16



COVID-19, cytokines, inflammation, and spices: How are they related?
Ajaikumar B Kunnumakkara, Varsha Rana, Dey Parama, Kishore Banik, Sosmitha Girisa, Sahu Henamayee, Krishan Kumar Thakur, Uma Dutta, Prachi Garodia, Subash C Gupta,[...]. Life Sci 2021
7
16



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.