Articles
Page 24 of 29
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Citation: Journal of Cheminformatics 2012 4(Suppl 1):P61
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SiteBinder – an improved approach for comparing multiple protein structural motifs. Case studies on biologically important motifs
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P59 -
Open access: changing the way chemistry is published
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P50 -
Docking based 3D-QSAR studies applied at the BRAF inhibitors to understand the binding mechanism
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P46 -
INSARA: a new method for the analysis and visualization of Structure-Activity-Relationships
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P44 -
Postprocessing of molecular docking poses using binding free energy calculations
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P42 -
Probabilistic classifier: generated using randomised sub-sampling of the feature space
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P40 -
Adsorption of amino acids on MFI-type zeolite: DFT calculations and experimental results
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P38 -
Systematic search for pairwise dependencies of torsion angles
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P36 -
The assessment of computationally derived protein ensembles in protein-ligand docking
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P34 -
Molecular dynamics simulations and docking of non-nucleoside reverse transcriptase inhibitors (NNRTIs): a possible approach to personalized HIV treatment
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P32 -
Identification of hot-spot regions of N-type Ca2+ channel receptor by homology modeling and molecular dynamics study, for structure-based blocker design
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P30 -
Novel binding pocket descriptors based on DrugScore potential fields encoded by 3D Zernike descriptors
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P28 -
A large scale classification of molecular fingerprints for the chemical space representation and SAR analysis
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P26 -
Virtual screening for plant PARP inhibitors – what can be learned from human PARP inhibitors?
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O24 -
Activity-difference maps and consensus similarity measure characterize structure-activity relationships
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P24 -
Improvements in docking scoring functions: the physics-based perspective
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O22 -
Ligand based lead generation - considering chemical accessibility in rescaffolding approaches via BROOD
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O20 -
Recent and current developments in handling Markush structures from chemical patents
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O18 -
Semantics vs. statistics in chemical markup
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O16 -
Synergistic approach of structure-based and ligand-based drug design for the development of selective cannabinod receptor ligands
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P11 -
Mechanistic DFT studies – helicate-type complexes with different alcylic spacers
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P9 -
Non-continuum solvation using the EC-RISM method applied to predict tautomer ratios, pKa and enantiomeric excess of alkylation reactions
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O9 -
Assessment of a probabilistic framework for combining structure- and ligand-based virtual screening
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P7 -
Putting the available chemical space to the fingertips of our scientists
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O7 -
Structured chemical class definitions and automated matching for chemical ontology evolution
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P5 -
Chemoinformatics in drug development
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O5 -
Packaging free software chemistry programs in Debian GNU/Linux: past, present and future
Citation: Journal of Cheminformatics 2012 4(Suppl 1):F4 -
Targeting protein-protein interactions using methods of cheminformatics
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P3 -
A computational method to facilitate structure-activity relationship transfer
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O3 -
What's new in KNIME?
Citation: Journal of Cheminformatics 2012 4(Suppl 1):F2 -
GCC2011 – 25 years of computational chemistry meetings
Citation: Journal of Cheminformatics 2012 4(Suppl 1):A1 -
Virtual screening and in silico design of novel inhibitors of bacterial lectins
Citation: Journal of Cheminformatics 2012 4(Suppl 1):P1 -
25 years of CIC – achievements and future goals
Citation: Journal of Cheminformatics 2012 4(Suppl 1):O1 -
Structure-based classification and ontology in chemistry
Recent years have seen an explosion in the availability of data in the chemistry domain. With this information explosion, however, retrieving relevant results from the available information, and organising those ...
Citation: Journal of Cheminformatics 2012 4:8 -
CheS-Mapper - Chemical Space Mapping and Visualization in 3D
Analyzing chemical datasets is a challenging task for scientific researchers in the field of chemoinformatics. It is important, yet difficult to understand the relationship between the structure of chemical co...
Citation: Journal of Cheminformatics 2012 4:7 -
Improving integrative searching of systems chemical biology data using semantic annotation
Systems chemical biology and chemogenomics are considered critical, integrative disciplines in modern biomedical research, but require data mining of large, integrated, heterogeneous datasets from chemistry an...
Citation: Journal of Cheminformatics 2012 4:6 -
Blind trials of computer-assisted structure elucidation software
One of the largest challenges in chemistry today remains that of efficiently mining through vast amounts of data in order to elucidate the chemical structure for an unknown compound. The elucidated candidate c...
Citation: Journal of Cheminformatics 2012 4:5 -
A physicochemical descriptor-based scoring scheme for effective and rapid filtering of kinase-like chemical space
The current chemical space of known small molecules is estimated to exceed 1060 structures. Though the largest physical compound repositories contain only a few tens of millions of unique compounds, virtual scree...
Citation: Journal of Cheminformatics 2012 4:4 -
LICSS - a chemical spreadsheet in microsoft excel
Representations of chemical datasets in spreadsheet format are important for ready data assimilation and manipulation. In addition to the normal spreadsheet facilities, chemical spreadsheets need to have visua...
Citation: Journal of Cheminformatics 2012 4:3 -
Predicting the mechanism of phospholipidosis
The mechanism of phospholipidosis is still not well understood. Numerous different mechanisms have been proposed, varying from direct inhibition of the breakdown of phospholipids to the binding of a drug compo...
Citation: Journal of Cheminformatics 2012 4:2 -
Making SharePoint® Chemically Aware™
The use of SharePoint® collaboration software for content management has become a critical part of today's drug discovery process. SharePoint 2010 software has laid a foundation which enables researchers to colla...
Citation: Journal of Cheminformatics 2012 4:1 -
New developments on the cheminformatics open workflow environment CDK-Taverna
The computational processing and analysis of small molecules is at heart of cheminformatics and structural bioinformatics and their application in e.g. metabolomics or drug discovery. Pipelining or workflow to...
Citation: Journal of Cheminformatics 2011 3:54 -
MyChemise: A 2D drawing program that uses morphing for visualisation purposes
MyChemise (My Chemical Structure Editor) is a new 2D structure editor. It is designed as a Java applet that enables the direct creation of structures in the Internet using a web browser. MyChemise saves files ...
Citation: Journal of Cheminformatics 2011 3:53 -
Automated annotation of chemical names in the literature with tunable accuracy
A significant portion of the biomedical and chemical literature refers to small molecules. The accurate identification and annotation of compound name that are relevant to the topic of the given literature can...
Citation: Journal of Cheminformatics 2011 3:52 -
An investigation into pharmaceutically relevant mutagenicity data and the influence on Ames predictive potential
In drug discovery, a positive Ames test for bacterial mutation presents a significant hurdle to advancing a drug to clinical trials. In a previous paper, we discussed success in predicting the genotoxicity of ...
Citation: Journal of Cheminformatics 2011 3:51 -
2D-Qsar for 450 types of amino acid induction peptides with a novel substructure pair descriptor having wider scope
Quantitative structure-activity relationships (QSAR) analysis of peptides is helpful for designing various types of drugs such as kinase inhibitor or antigen. Capturing various properties of peptides is essent...
Citation: Journal of Cheminformatics 2011 3:50 -
Molecular dynamics simulations and in silico peptide ligand screening of the Elk-1 ETS domain
The Elk-1 transcription factor is a member of a group of proteins called ternary complex factors, which serve as a paradigm for gene regulation in response to extracellular signals. Its deregulation has been l...
Citation: Journal of Cheminformatics 2011 3:49 -
Open Bibliography for Science, Technology, and Medicine
The concept of Open Bibliography in science, technology and medicine (STM) is introduced as a combination of Open Source tools, Open specifications and Open bibliographic data. An Openly searchable and navigab...
Citation: Journal of Cheminformatics 2011 3:47 -
Openness as infrastructure
The advent of open access to peer reviewed scholarly literature in the biomedical sciences creates the opening to examine scholarship in general, and chemistry in particular, to see where and how novel forms o...
Citation: Journal of Cheminformatics 2011 3:36