Related references
Note: Only part of the references are listed.In silico molecular docking in DNA aptamer development
Tholasi Nadhan Navien et al.
BIOCHIMIE (2021)
High bio-recognizing aptamer designing and optimization against human herpes virus-5
Neeraj Kumar et al.
EUROPEAN JOURNAL OF PHARMACEUTICAL SCIENCES (2021)
Selection and characterization of an ssDNA aptamer against thyroglobulin
Chao Zhu et al.
TALANTA (2021)
Aptamers as potential recognition elements for detection of vitamins and minerals: a systematic and critical review
Maryam Heydari et al.
CRITICAL REVIEWS IN CLINICAL LABORATORY SCIENCES (2020)
Molecular Epitope Determination of Aptamer Complexes of the Multidomain Protein C-Met by Proteolytic Affinity-Mass Spectrometry
Loredana Lupu et al.
CHEMMEDCHEM (2020)
In silico maturation of affinity and selectivity of DNA aptamers against aflatoxin B1 for biosensor development
Maryam Mousivand et al.
ANALYTICA CHIMICA ACTA (2020)
Aptamer-linked immobilized sorbent assay for detecting GMO marker, phosphinothricin acetyltransferase (PAT)
Woo-Ri Shin et al.
MOLECULAR & CELLULAR TOXICOLOGY (2020)
Doxorubicin-Conjugated Innovative 16-mer DNA Aptamer-Based Annexin A1 Targeted Anti-Cancer Drug Delivery
Rohit Bavi et al.
MOLECULAR THERAPY-NUCLEIC ACIDS (2020)
Screening and application of a truncated aptamer for high-sensitive fluorescent detection of metronidazole
Hao Wei et al.
ANALYTICA CHIMICA ACTA (2020)
Adipose specific aptamer adipo-8 recognizes and interacts with APMAP to ameliorates fat deposition in vitro and in vivo
Wen Zhong et al.
LIFE SCIENCES (2020)
The assessment of three dimensional modelling design for single strand DNA aptamers for computational chemistry application
Mohamad Zulkeflee Sabri et al.
BIOPHYSICAL CHEMISTRY (2020)
An In-Silico Pipeline for Rapid Screening of DNA Aptamers against Mycotoxins: The Case-Study of Fumonisin B1, Aflatoxin B1 and Ochratoxin A
Fulvio Ciriaco et al.
POLYMERS (2020)
De novo post-SELEX optimization of a G-quadruplex DNA aptamer binding to marine toxin gonyautoxin 1/4
Menghua Song et al.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL (2020)
Methods and Applications of In Silico Aptamer Design and Modeling
Andrey A. Buglak et al.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2020)
The discovery of lactoferrin dual aptamers through surface plasmon resonance imaging combined with a bioinformation analysis
Wenchao Jia et al.
ANALYST (2020)
Recent Advances in Aptamer Discovery and Applications
Yang Zhang et al.
MOLECULES (2019)
Development of a highly specific chemiluminescence aptasensor for sulfamethazine detection in milk based on in vitro selected aptamers
Ling Yang et al.
SENSORS AND ACTUATORS B-CHEMICAL (2019)
Computational analysis and optimization of carcinoembryonic antigen aptamers and experimental evaluation
Kazem Yarizadeh et al.
JOURNAL OF BIOTECHNOLOGY (2019)
Beacons Contribute Valuable Empirical Information to Theoretical 3-D Aptamer-Peptide Binding
John G. Bruno et al.
JOURNAL OF FLUORESCENCE (2019)
Functional nucleic acids tailoring and its application
Xingning Xiao et al.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY (2019)
Structural and mechanistic insights into modified G-quadruplex thrombin-binding DNA aptamers
Lidan Sun et al.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2019)
Comparative Assessment of Seven Docking Programs on a Nonredundant Metalloprotein Subset of the PDBbind Refined
Suleyman Selim Cinaroglu et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2019)
Integration of multiple computer modeling software programs for characterization of a brain natriuretic peptide sandwich DNA aptamer complex
John G. Bruno
JOURNAL OF MOLECULAR RECOGNITION (2019)
Three decades of nucleic acid aptamer technologies: Lessons learned, progress and opportunities on aptamer development
Tao Wang et al.
BIOTECHNOLOGY ADVANCES (2019)
Prediction, docking study and molecular simulation of 3D DNA aptamers to their targets of endocrine disrupting chemicals
Weiwen Zhang et al.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2019)
In silico post-SELEX screening and experimental characterizations for acquisition of high affinity DNA aptamers against carcinoembryonic antigen
Qiong-Lin Wang et al.
RSC ADVANCES (2019)
In vitro selection and characterization of single stranded DNA aptamers for luteolin: A possible recognition tool
Jinan Tuma Sabah et al.
ANALYTICAL BIOCHEMISTRY (2018)
Selection of specific aptamer against enrofloxacin and fabrication of graphene oxide based label-free fluorescent assay
Somayeh Dolati et al.
ANALYTICAL BIOCHEMISTRY (2018)
Effect of PDGF-B aptamer on PDGFRβ/PDGF-B interaction: Molecular dynamics study
Cong Quang Vu et al.
JOURNAL OF MOLECULAR GRAPHICS & MODELLING (2018)
Selection and targeting of EpCAM protein by ssDNA aptamer (vol 12, e0189558, 2017)
Walhan Alshaer et al.
PLOS ONE (2018)
Development and characterization of DNA aptamers against florfenicol: Fabrication of a sensitive fluorescent aptasensor for specific detection of florfenicol in milk
Atefeh Sarafan Sadeghi et al.
TALANTA (2018)
Protein-Induced Fluorescence Enhancement Based Detection of Plasmodium falciparum Glutamate Dehydrogenase Using Carbon Dot Coupled Specific Aptamer
Naveen Kumar Singh et al.
ACS COMBINATORIAL SCIENCE (2018)
Selection of a DNA Aptamer against Zearalenone and Docking Analysis for Highly Sensitive Rapid Visual Detection with Label-Free Aptasensor
Yuanyuan Zhang et al.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY (2018)
Apta-nanosensor preparation and in vitro assay for rapid Diazinon detection using a computational molecular approach
Mahmoud Jokar et al.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2017)
3D-NuS: A Web Server for Automated Modeling and Visualization of Non-Canonical 3-Dimensional Nucleic Acid Structures
L. Ponoop Prasad Patro et al.
JOURNAL OF MOLECULAR BIOLOGY (2017)
HDOCK: a web server for protein-protein and protein-DNA/RNA docking based on a hybrid strategy
Yumeng Yan et al.
NUCLEIC ACIDS RESEARCH (2017)
Effect of Chemical Modifications on Aptamer Stability in Serum
Christina Kratschmer et al.
NUCLEIC ACID THERAPEUTICS (2017)
Three-dimensional modeling of single stranded DNA hairpins for aptamer-based biosensors
Iman Jeddi et al.
SCIENTIFIC REPORTS (2017)
Multifaceted analyses of the interactions between human heart type fatty acid binding protein and its specific aptamers
Ankana Kakoti et al.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS (2017)
The Bound Structures of 17β-Estradiol-Binding Aptamers
Tamsyn A. Hilder et al.
CHEMPHYSCHEM (2017)
Computational 3D Assembling Methods for DNA: A Survey
Adriano N. Raposo et al.
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS (2016)
Computational approach to analyze isolated ssDNA aptamers against angiotensin II
Mohammad Heiat et al.
JOURNAL OF BIOTECHNOLOGY (2016)
SimRNAweb: a web server for RNA 3D structure modeling with optional restraints
Marcin Magnus et al.
NUCLEIC ACIDS RESEARCH (2016)
A Novel PD-L1-targeting Antagonistic DNA Aptamer With Antitumor Effects
Wei-Yun Lai et al.
MOLECULAR THERAPY-NUCLEIC ACIDS (2016)
Development of ssDNA aptamers as potent inhibitors of Mycobacterium tuberculosis acetohydroxyacid synthase
Irshad Ahmed Baig et al.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS (2015)
Computational docking simulations of a DNA-aptamer for argininamide and related ligands
H. Bauke Albada et al.
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN (2015)
NPDock: a web server for protein-nucleic acid docking
Irina Tuszynska et al.
NUCLEIC ACIDS RESEARCH (2015)
Beware of docking!
Yu-Chian Chen
TRENDS IN PHARMACOLOGICAL SCIENCES (2015)
Screening and Identifying a Novel ssDNA Aptamer against Alpha-fetoprotein Using CE-SELEX
Lili Dong et al.
SCIENTIFIC REPORTS (2015)
ZDOCK server: interactive docking prediction of protein-protein complexes and symmetric multimers
Brian G. Pierce et al.
BIOINFORMATICS (2014)
Selection of a DNA aptamer against norovirus capsid protein VP1
Rico Beier et al.
FEMS MICROBIOLOGY LETTERS (2014)
Docking Studies on DNA Intercalators
Yocheved Gilad et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2014)
Insights into mechanism of anticancer activity of pentacyclic oxindole alkaloids of Uncaria tomentosa by means of a computational reverse virtual screening and molecular docking approach
Pawel Kozielewicz et al.
MONATSHEFTE FUR CHEMIE (2014)
rDock: A Fast, Versatile and Open Source Program for Docking Ligands to Proteins and Nucleic Acids
Sergio Ruiz-Carmona et al.
PLOS COMPUTATIONAL BIOLOGY (2014)
Aptamers: Problems, Solutions and Prospects
A. V. Lakhin et al.
ACTA NATURAE (2013)
MDWeb and MDMoby: an integrated web-based platform for molecular dynamics simulations
Adam Hospital et al.
BIOINFORMATICS (2012)
High-Resolution Single-Molecule Recognition Imaging of the Molecular Details of Ricin-Aptamer Interaction
Bin Wang et al.
JOURNAL OF PHYSICAL CHEMISTRY B (2012)
Automated 3D structure composition for large RNAs
Mariusz Popenda et al.
NUCLEIC ACIDS RESEARCH (2012)
ViennaRNA Package 2.0
Ronny Lorenz et al.
ALGORITHMS FOR MOLECULAR BIOLOGY (2011)
NUPACK: Analysis and Design of Nucleic Acid Systems
Joseph N. Zadeh et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2011)
ModeRNA: a tool for comparative modeling of RNA 3D structure
Magdalena Rother et al.
NUCLEIC ACIDS RESEARCH (2011)
Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels
Fabrice Jossinet et al.
BIOINFORMATICS (2010)
RNAstructure: software for RNA secondary structure prediction and analysis
Jessica S. Reuter et al.
BMC BIOINFORMATICS (2010)
Ligand docking and binding site analysis with PyMOL and Autodock/Vina
Daniel Seeliger et al.
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN (2010)
Docking Studies on DNA-Ligand Interactions: Building and Application of a Protocol To Identify the Binding Mode
Clarisse G. Ricci et al.
JOURNAL OF CHEMICAL INFORMATION AND MODELING (2009)
Preferred Reporting Items for Systematic Reviews and Meta-Analyses: The PRISMA Statement
David Moher et al.
JOURNAL OF CLINICAL EPIDEMIOLOGY (2009)
3D-DART: a DNA structure modelling server
Marc van Dijk et al.
NUCLEIC ACIDS RESEARCH (2009)
iFoldRNA: three-dimensional RNA structure prediction and folding
Shantanu Sharma et al.
BIOINFORMATICS (2008)
The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data
Marc Parisien et al.
NATURE (2008)
Clustal W and clustal X version 2.0
M. A. Larkin et al.
BIOINFORMATICS (2007)
Multiple alignment by aligning alignments
Travis J. Wheeler et al.
BIOINFORMATICS (2007)
QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences
Oleg Kikin et al.
NUCLEIC ACIDS RESEARCH (2006)
PatchDock and SymmDock: servers for rigid and symmetric docking
D Schneidman-Duhovny et al.
NUCLEIC ACIDS RESEARCH (2005)
Validation of an empirical RNA-ligand scoring function for fast flexible docking using RiboDock®
SD Morley et al.
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN (2004)
UCSF chimera - A visualization system for exploratory research and analysis
EF Pettersen et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2004)
3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures
XJ Lu et al.
NUCLEIC ACIDS RESEARCH (2003)
Mfold web server for nucleic acid folding and hybridization prediction
M Zuker
NUCLEIC ACIDS RESEARCH (2003)
Vienna RNA secondary structure server
IL Hofacker
NUCLEIC ACIDS RESEARCH (2003)
ZDOCK: An initial-stage protein-docking algorithm
R Chen et al.
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2003)
HADDOCK: A protein-protein docking approach based on biochemical or biophysical information
C Dominguez et al.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY (2003)