A citation-based method for searching scientific literature

Shafi Mahmud, Mohammad Abu Raihan Uddin, Gobindo Kumar Paul, Mst Sharmin Sultana Shimu, Saiful Islam, Ekhtiar Rahman, Ariful Islam, Md Samiul Islam, Maria Meha Promi, Talha Bin Emran, Md Abu Saleh. Brief Bioinform 2021
Times Cited: 18







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



Times Cited
  Times     Co-cited
Similarity


A molecular modelling approach for identifying antiviral selenium-containing heterocyclic compounds that inhibit the main protease of SARS-CoV-2: an in silico investigation.
Ahmed Rakib, Zulkar Nain, Saad Ahmed Sami, Shafi Mahmud, Ashiqul Islam, Shahriar Ahmed, Adnan Bin Faisul Siddiqui, S M Omar Faruque Babu, Payar Hossain, Asif Shahriar,[...]. Brief Bioinform 2021
14
92

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
61

Drug Repurposing Approach against Novel Coronavirus Disease (COVID-19) through Virtual Screening Targeting SARS-CoV-2 Main Protease.
Kamrul Hasan Chowdhury, Md Riad Chowdhury, Shafi Mahmud, Abu Montakim Tareq, Nujhat Binte Hanif, Naureen Banu, A S M Ali Reza, Talha Bin Emran, Jesus Simal-Gandara. Biology (Basel) 2020
20
55

New ways to boost molecular dynamics simulations.
Elmar Krieger, Gert Vriend. J Comput Chem 2015
278
50

Epitope-Based Immunoinformatics Approach on Nucleocapsid Protein of Severe Acute Respiratory Syndrome-Coronavirus-2.
Ahmed Rakib, Saad Ahmed Sami, Md Ashiqul Islam, Shahriar Ahmed, Farhana Binta Faiz, Bibi Humayra Khanam, Kay Kay Shain Marma, Maksuda Rahman, Mir Muhammad Nasir Uddin, Firzan Nainu,[...]. Molecules 2020
14
50

Chemical Profiles and Pharmacological Properties with in Silico Studies on Elatostema papillosum Wedd.
Md Zia Uddin, Arkajyoti Paul, Ahmed Rakib, Saad Ahmed Sami, Shafi Mahmud, Md Sohel Rana, Shahadat Hossain, Abu Montakim Tareq, Mycal Dutta, Talha Bin Emran,[...]. Molecules 2021
11
63

Immunoinformatics-guided design of an epitope-based vaccine against severe acute respiratory syndrome coronavirus 2 spike glycoprotein.
Ahmed Rakib, Saad Ahmed Sami, Nusrat Jahan Mimi, Md Mustafiz Chowdhury, Taslima Akter Eva, Firzan Nainu, Arkajyoti Paul, Asif Shahriar, Abu Montakim Tareq, Nazim Uddin Emon,[...]. Comput Biol Med 2020
31
38

Efficacy of Phytochemicals Derived from Avicennia officinalis for the Management of COVID-19: A Combined In Silico and Biochemical Study.
Shafi Mahmud, Gobindo Kumar Paul, Mirola Afroze, Shirmin Islam, Swagota Briti Ray Gupt, Mamudul Hasan Razu, Suvro Biswas, Shahriar Zaman, Md Salah Uddin, Mala Khan,[...]. Molecules 2021
12
58

YASARA: A Tool to Obtain Structural Guidance in Biocatalytic Investigations.
Henrik Land, Maria Svedendahl Humble. Methods Mol Biol 2018
79
38


Biochemical and Computational Approach of Selected Phytocompounds from Tinospora crispa in the Management of COVID-19.
Ahmed Rakib, Arkajyoti Paul, Md Nazim Uddin Chy, Saad Ahmed Sami, Sumit Kumar Baral, Mohuya Majumder, Abu Montakim Tareq, Mohammad Nurul Amin, Asif Shahriar, Md Zia Uddin,[...]. Molecules 2020
22
33


Fast empirical pKa prediction by Ewald summation.
Elmar Krieger, Jens E Nielsen, Chris A E M Spronk, Gert Vriend. J Mol Graph Model 2006
184
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

Molecular docking and dynamics study of natural compound for potential inhibition of main protease of SARS-CoV-2.
Shafi Mahmud, Mohammad Abu Raihan Uddin, Meemtaheena Zaman, Khaled Mahmud Sujon, Md Ekhtiar Rahman, Mobasshir Noor Shehab, Ariful Islam, Md Wasim Alom, Al Amin, Al Shahriar Akash,[...]. J Biomol Struct Dyn 2021
18
27

Comparative molecular investigation of the potential inhibitors against SARS-CoV-2 main protease: a molecular docking study.
Md Arif Khan, Shafi Mahmud, A S M Rubayet Ul Alam, Md Ekhtiar Rahman, Firoz Ahmed, Mohammed Rahmatullah. J Biomol Struct Dyn 2021
15
33

PubChem Substance and Compound databases.
Sunghwan Kim, Paul A Thiessen, Evan E Bolton, Jie Chen, Gang Fu, Asta Gindulyte, Lianyi Han, Jane He, Siqian He, Benjamin A Shoemaker,[...]. Nucleic Acids Res 2016
27

Potential of Plant Bioactive Compounds as SARS-CoV-2 Main Protease (Mpro) and Spike (S) Glycoprotein Inhibitors: A Molecular Docking Study.
Trina Ekawati Tallei, Sefren Geiner Tumilaar, Nurdjannah Jane Niode, Fatimawali, Billy Johnson Kepel, Rinaldi Idroes, Yunus Effendi, Shahenur Alam Sakib, Talha Bin Emran. Scientifica (Cairo) 2020
44
27


Emerging coronaviruses: Genome structure, replication, and pathogenesis.
Yu Chen, Qianyun Liu, Deyin Guo. J Med Virol 2020
27

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
27

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
27

Prospective Role of Peptide-Based Antiviral Therapy Against the Main Protease of SARS-CoV-2.
Shafi Mahmud, Gobindo Kumar Paul, Suvro Biswas, Shamima Afrose, Mohasana Akter Mita, Md Robiul Hasan, Mst Sharmin Sultana Shimu, Alomgir Hossain, Maria Meha Promi, Fahmida Khan Ema,[...]. Front Mol Biosci 2021
6
83

Exploring the potent inhibitors and binding modes of phospholipase A2 through in silico investigation.
Shafi Mahmud, Md Rimon Parves, Yasir Mohamed Riza, Khaled Mahmud Sujon, Suvendu Ray, Fahmida Alam Tithi, Zannati Ferdous Zaoti, Sanjida Alam, N Absar. J Biomol Struct Dyn 2020
10
40

Extensive immunoinformatics study for the prediction of novel peptide-based epitope vaccine with docking confirmation against envelope protein of Chikungunya virus: a computational biology approach.
Syed Shahariar Bappy, Sorna Sultana, Juthi Adhikari, Shafi Mahmud, Md Arif Khan, K M Kaderi Kibria, Md Masuder Rahman, Abu Zaffar Shibly. J Biomol Struct Dyn 2021
14
28

admetSAR: a comprehensive source and free tool for assessment of chemical ADMET properties.
Feixiong Cheng, Weihua Li, Yadi Zhou, Jie Shen, Zengrui Wu, Guixia Liu, Philip W Lee, Yun Tang. J Chem Inf Model 2012
631
22

Covid-19 and dengue: Double punches for dengue-endemic countries in Asia.
Harapan Harapan, Mirza Ryan, Benediktus Yohan, Rufika Shari Abidin, Firzan Nainu, Ahmed Rakib, Israt Jahan, Talha Bin Emran, Irfan Ullah, Kritu Panta,[...]. Rev Med Virol 2021
28
22

Lianhuaqingwen exerts anti-viral and anti-inflammatory activity against novel coronavirus (SARS-CoV-2).
Li Runfeng, Hou Yunlong, Huang Jicheng, Pan Weiqi, Ma Qinhai, Shi Yongxia, Li Chufang, Zhao Jin, Jia Zhenhua, Jiang Haiming,[...]. Pharmacol Res 2020
259
22

A pneumonia outbreak associated with a new coronavirus of probable bat origin.
Peng Zhou, Xing-Lou Yang, Xian-Guang Wang, Ben Hu, Lei Zhang, Wei Zhang, Hao-Rui Si, Yan Zhu, Bei Li, Chao-Lin Huang,[...]. Nature 2020
22

Genome Composition and Divergence of the Novel Coronavirus (2019-nCoV) Originating in China.
Aiping Wu, Yousong Peng, Baoying Huang, Xiao Ding, Xianyue Wang, Peihua Niu, Jing Meng, Zhaozhong Zhu, Zheng Zhang, Jiangyuan Wang,[...]. Cell Host Microbe 2020
917
22

The SARS-CoV-2 main protease as drug target.
Sven Ullrich, Christoph Nitsche. Bioorg Med Chem Lett 2020
162
22


Coronavirus main proteinase (3CLpro) structure: basis for design of anti-SARS drugs.
Kanchan Anand, John Ziebuhr, Parvesh Wadhwani, Jeroen R Mesters, Rolf Hilgenfeld. Science 2003
906
22

COVID-19: The first documented coronavirus pandemic in history.
Yen-Chin Liu, Rei-Lin Kuo, Shin-Ru Shih. Biomed J 2020
124
22


Development and testing of a general amber force field.
Junmei Wang, Romain M Wolf, James W Caldwell, Peter A Kollman, David A Case. J Comput Chem 2004
22

Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments.
G Madhavi Sastry, Matvey Adzhigirey, Tyler Day, Ramakrishna Annabhimoju, Woody Sherman. J Comput Aided Mol Des 2013
16

SARS-CoV-2 reinfection and implications for vaccine development.
Firzan Nainu, Rufika Shari Abidin, Muh Akbar Bahar, Andri Frediansyah, Talha Bin Emran, Ali A Rabaan, Kuldeep Dhama, Harapan Harapan. Hum Vaccin Immunother 2020
15
20


GC-MS Phytochemical Profiling, Pharmacological Properties, and In Silico Studies of Chukrasia velutina Leaves: A Novel Source for Bioactive Agents.
Israt Jahan, Marzia Rahman Tona, Sanjida Sharmin, Mohammed Aktar Sayeed, Fatamatuz Zuhura Tania, Arkajyoti Paul, Md Nazim Uddin Chy, Ahmed Rakib, Talha Bin Emran, Jesus Simal-Gandara. Molecules 2020
22
16

Corrigendum to: Lianhuaqingwen exerts anti-viral and anti-inflammatory activity against novel coronavirus (SARS-CoV-2) [Pharmacol. Res. 156 (2020) 104761].
Li Runfeng, Hou Yunlong, Huang Jicheng, Pan Weiqi, Ma Qinhai, Shi Yongxia, Li Chufang, Zhao Jin, Jia Zhenhua, Jiang Haiming,[...]. Pharmacol Res 2021
65
16

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor.
Markus Hoffmann, Hannah Kleine-Weber, Simon Schroeder, Nadine Krüger, Tanja Herrler, Sandra Erichsen, Tobias S Schiergens, Georg Herrler, Nai-Huei Wu, Andreas Nitsche,[...]. Cell 2020
16

Structure of coronavirus main proteinase reveals combination of a chymotrypsin fold with an extra alpha-helical domain.
Kanchan Anand, Gottfried J Palm, Jeroen R Mesters, Stuart G Siddell, John Ziebuhr, Rolf Hilgenfeld. EMBO J 2002
354
16

Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor.
Jun Lan, Jiwan Ge, Jinfang Yu, Sisi Shan, Huan Zhou, Shilong Fan, Qi Zhang, Xuanling Shi, Qisheng Wang, Linqi Zhang,[...]. Nature 2020
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

Role of Inflammatory Cytokines in COVID-19 Patients: A Review on Molecular Mechanisms, Immune Functions, Immunopathology and Immunomodulatory Drugs to Counter Cytokine Storm.
Ali A Rabaan, Shamsah H Al-Ahmed, Javed Muhammad, Amjad Khan, Anupam A Sule, Raghavendra Tirupathi, Abbas Al Mutair, Saad Alhumaid, Awad Al-Omari, Manish Dhawan,[...]. Vaccines (Basel) 2021
20
16

Lipid14: The Amber Lipid Force Field.
Callum J Dickson, Benjamin D Madej, Age A Skjevik, Robin M Betz, Knut Teigen, Ian R Gould, Ross C Walker. J Chem Theory Comput 2014
602
16

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
16

Fermentation optimization of cellulase production from sugarcane bagasse by Bacillus pseudomycoides and molecular modeling study of cellulase.
Sajib Kumar Pramanik, Shafi Mahmud, Gobindo Kumar Paul, Tabassum Jabin, Kamrun Naher, Md Salah Uddin, Shahriar Zaman, Md Abu Saleh. Curr Res Microb Sci 2020
4
75


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.