DisCoVering potential candidates of RNAi-based therapy for COVID-19 using computational methods

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and coronavirus disease-2019 (COVID-19): The epidemic and the challenges

(2020) Chih-Cheng Lai et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

The epidemiology and pathogenesis of coronavirus disease (COVID-19) outbreak

(2020) Hussin A. Rothan et al.   JOURNAL OF AUTOIMMUNITY

Genomic variance of the 2019‐nCoV coronavirus

(2020) Carmine Ceraolo et al.   JOURNAL OF MEDICAL VIROLOGY

A pneumonia outbreak associated with a new coronavirus of probable bat origin

(2020) Peng Zhou et al.   NATURE

Preliminary Identification of Potential Vaccine Targets for the COVID-19 Coronavirus (SARS-CoV-2) Based on SARS-CoV Immunological Studies

(2020) Syed Faraz Ahmed et al.   Viruses-Basel

Analysis of therapeutic targets for SARS-CoV-2 and discovery of potential drugs by computational methods

(2020) Canrong Wu et al.   Acta Pharmaceutica Sinica B

Computational Design of ACE2-Based Peptide Inhibitors of SARS-CoV-2

(2020) Yanxiao Han et al.   ACS Nano

Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein

(2020) Alexandra C. Walls et al.   CELL

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor

(2020) Markus Hoffmann et al.   CELL

An exclusive 42 amino acid signature in pp1ab protein provides insights into the evolutive history of the 2019 novel human‐pathogenic coronavirus (SARS‐CoV‐2)

(2020) Yair Cárdenas‐Conejo et al.   JOURNAL OF MEDICAL VIROLOGY

SARS‐CoV ‐2: At the Crossroad Between Aging and Neurodegeneration

(2020) Alice Lippi et al.   MOVEMENT DISORDERS

Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor

(2020) Jun Lan et al.   NATURE

Structural basis of receptor recognition by SARS-CoV-2

(2020) Jian Shang et al.   NATURE

Crystal structure of SARS-CoV-2 nucleocapsid protein RNA binding domain reveals potential unique drug targeting sites

(2020) Sisi Kang et al.   Acta Pharmaceutica Sinica B

The current state and future directions of RNAi-based therapeutics

(2019) Ryan L. Setten et al.   NATURE REVIEWS DRUG DISCOVERY

miRDB: an online database for prediction of functional microRNA targets

(2019) Yuhao Chen et al.   NUCLEIC ACIDS RESEARCH

Comprehensive Analysis of Human microRNA–mRNA Interactome

(2019) Olga Plotnikova et al.   Frontiers in Genetics

Nsp3 of coronaviruses: Structures and functions of a large multi-domain protein

(2018) Jian Lei et al.   ANTIVIRAL RESEARCH

Bat lung epithelial cells show greater host species-specific innate resistance than MDCK cells to human and avian influenza viruses

(2018) Tessa Slater et al.   Virology Journal

Cryo-EM structure of the SARS coronavirus spike glycoprotein in complex with its host cell receptor ACE2

(2018) Wenfei Song et al.   PLoS Pathogens

miRBase: from microRNA sequences to function

(2018) Ana Kozomara et al.   NUCLEIC ACIDS RESEARCH

IntaRNA 2.0: enhanced and customizable prediction of RNA–RNA interactions

(2017) Martin Mann et al.   NUCLEIC ACIDS RESEARCH

Two-amino acids change in the nsp4 of SARS coronavirus abolishes viral replication

(2017) Yusuke Sakai et al.   VIROLOGY

In situ click chemistry generation of cyclooxygenase-2 inhibitors

(2017) Atul Bhardwaj et al.   Nature Communications

Therapeutic miRNA and siRNA: Moving from Bench to Clinic as Next Generation Medicine

(2017) Chiranjib Chakraborty et al.   Molecular Therapy-Nucleic Acids

The Clinical Application of MicroRNAs in Infectious Disease

(2017) Ruth E. Drury et al.   Frontiers in Immunology

RNA Interference (RNAi)-Based Therapeutics: Delivering on the Promise?

(2016) Maggie L. Bobbin et al.   Annual Review of Pharmacology and Toxicology

Locating rearrangement events in a phylogeny based on highly fragmented assemblies

(2016) Chunfang Zheng et al.   BMC GENOMICS

Cryo-electron microscopy structures of the SARS-CoV spike glycoprotein reveal a prerequisite conformational state for receptor binding

(2016) Miao Gui et al.   CELL RESEARCH

Cryo-electron microscopy structure of a coronavirus spike glycoprotein trimer

(2016) Alexandra C. Walls et al.   NATURE

Pre-fusion structure of a human coronavirus spike protein

(2016) Robert N. Kirchdoerfer et al.   NATURE

Proteolytic processing of Middle East respiratory syndrome coronavirus spikes expands virus tropism

(2016) Jung-Eun Park et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroRNA reduction of neuronal West Nile virus replication attenuates and affords a protective immune response in mice

(2016) Terza Brostoff et al.   VACCINE

The microRNA-let-7b-mediated attenuated strain of influenza A (H1N1) virus in a mouse model

(2016) Mingming Tan et al.   Journal of Infection in Developing Countries

The SARS-coronavirus papain-like protease: Structure, function and inhibition by designed antiviral compounds

(2015) Yahira M. Báez-Santos et al.   ANTIVIRAL RESEARCH

Altered Viral Replication and Cell Responses by Inserting MicroRNA Recognition Element into PB1 in Pandemic Influenza A Virus (H1N1) 2009

(2015) Xiaoyue Shen et al.   MEDIATORS OF INFLAMMATION

Coronavirus NSP6 restricts autophagosome expansion

(2014) Eleanor M Cottam et al.   Autophagy

Improving miRNA-mRNA interaction predictions

(2014) Daniel Tabas-Madrid et al.   BMC GENOMICS

Common features of microRNA target prediction tools

(2014) Sarah M. Peterson et al.   Frontiers in Genetics

Mapping the Human miRNA Interactome by CLASH Reveals Frequent Noncanonical Binding

(2013) Aleksandra Helwak et al.   CELL

Differential Sensitivity of Bat Cells to Infection by Enveloped RNA Viruses: Coronaviruses, Paramyxoviruses, Filoviruses, and Influenza Viruses

(2013) Markus Hoffmann et al.   PLoS One

GenBank

(2012) Dennis A. Benson et al.   NUCLEIC ACIDS RESEARCH

Quantification of miRNA-mRNA Interactions

(2012) Ander Muniategui et al.   PLoS One

ViennaRNA Package 2.0

(2011) Ronny Lorenz et al.   Algorithms for Molecular Biology

Practical Aspects of microRNA Target Prediction

(2011) T. M. Witkos et al.   CURRENT MOLECULAR MEDICINE

miRWalk – Database: Prediction of possible miRNA binding sites by “walking” the genes of three genomes

(2011) Harsh Dweep et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Endoribonuclease activities of porcine reproductive and respiratory syndrome virus nsp11 was essential for nsp11 to inhibit IFN-β induction

(2011) Xibao Shi et al.   MOLECULAR IMMUNOLOGY

Insertion of MicroRNA Targets into the Flavivirus Genome Alters Its Highly Neurovirulent Phenotype

(2010) B. L. Heiss et al.   JOURNAL OF VIROLOGY

siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect

(2009) Yuki Naito et al.   BMC BIOINFORMATICS

MicroRNA-mediated species-specific attenuation of influenza A virus

(2009) Jasmine T Perez et al.   NATURE BIOTECHNOLOGY

Severe Acute Respiratory Syndrome Coronavirus Protein 6 Is Required for Optimal Replication

(2008) J. Zhao et al.   JOURNAL OF VIROLOGY

HITS-CLIP yields genome-wide insights into brain alternative RNA processing

(2008) Donny D. Licatalosi et al.   NATURE

Thermodynamic stability and Watson–Crick base pairing in the seed duplex are major determinants of the efficiency of the siRNA-based off-target effect

(2008) Kumiko Ui-Tei et al.   NUCLEIC ACIDS RESEARCH