[HTML][HTML] The Chemistry Development Kit (CDK) v2. 0: atom typing, depiction, molecular formulas, and substructure searching

EL Willighagen, JW Mayfield, J Alvarsson… - Journal of …, 2017 - Springer
Abstract Background The Chemistry Development Kit (CDK) is a widely used open source
cheminformatics toolkit, providing data structures to represent chemical concepts along with …

[HTML][HTML] iPSC-based compound screening and in vitro trials identify a synergistic anti-amyloid β combination for Alzheimer's disease

T Kondo, K Imamura, M Funayama, K Tsukita… - Cell reports, 2017 - cell.com
In the process of drug development, in vitro studies do not always adequately predict human-
specific drug responsiveness in clinical trials. Here, we applied the advantage of human …

[HTML][HTML] ExCAPE-DB: an integrated large scale dataset facilitating Big Data analysis in chemogenomics

J Sun, N Jeliazkova, V Chupakhin… - Journal of …, 2017 - Springer
Chemogenomics data generally refers to the activity data of chemical compounds on an
array of protein targets and represents an important source of information for building in …

Comparison of the predictive performance and interpretability of random forest and linear models on benchmark data sets

RL Marchese Robinson, A Palczewska… - Journal of chemical …, 2017 - ACS Publications
The ability to interpret the predictions made by quantitative structure–activity relationships
(QSARs) offers a number of advantages. While QSARs built using nonlinear modeling …

Applying mondrian cross-conformal prediction to estimate prediction confidence on large imbalanced bioactivity data sets

J Sun, L Carlsson, E Ahlberg, U Norinder… - Journal of chemical …, 2017 - ACS Publications
Conformal prediction has been proposed as a more rigorous way to define prediction
confidence compared to other application domain concepts that have earlier been used for …

Critical role of computer simulations in drug discovery and development

P Srivastava, A Tiwari - Current Topics in Medicinal Chemistry, 2017 - ingentaconnect.com
The last couple of decades has witnessed that an amalgamation of multidisciplinary
branches of science come together in the form of 'Bioinformatics' and made a substantial …

State of the art review and report of new tool for drug discovery

Y Martinez-Lopez, Y Caballero… - Current topics in …, 2017 - ingentaconnect.com
Background: There are a great number of tools that can be used in QSAR/QSPR studies;
they are implemented in several programs that are reviewed in this report. The usefulness of …

Towards the revival of interpretable QSAR models

W Shoombuatong, P Prathipati, W Owasirikul… - Advances in QSAR …, 2017 - Springer
Quantitative structure-activity relationship (QSAR) has been instrumental in aiding medicinal
chemists and physical scientists in understanding how modification of substituents at …

Understanding the mode-of-action of Cassia auriculata via in silico and in vivo studies towards validating it as a long term therapy for type II diabetes

FM Fauzi, CM John, A Karunanidhi, HY Mussa… - Journal of …, 2017 - Elsevier
Ethnopharmacological relevance Cassia auriculata (CA) is used as an antidiabetic therapy
in Ayurvedic and Siddha practice. This study aimed to understand the mode-of-action of CA …

Conformation-dependent QSAR approach for the prediction of inhibitory activity of bromodomain modulators

CR García-Jacas, K Martinez-Mayorga… - SAR and QSAR in …, 2017 - Taylor & Francis
Epigenetic drug discovery is a promising research field with growing interest in the scientific
community, as evidenced by the number of publications and the large amount of structure …