Using graph theory to analyze biological networks

GA Pavlopoulos, M Secrier, CN Moschopoulos… - BioData mining, 2011 - Springer
Understanding complex systems often requires a bottom-up analysis towards a systems
biology approach. The need to investigate a system, not only as individual components but …

Recent developments of the chemistry development kit (CDK)-an open-source java library for chemo-and bioinformatics

C Steinbeck, C Hoppe, S Kuhn, M Floris… - Current …, 2006 - ingentaconnect.com
The Chemistry Development Kit (CDK) provides methods for common tasks in molecular
informatics, including 2D and 3D rendering of chemical structures, I/O routines, SMILES …

A universal system for digitization and automatic execution of the chemical synthesis literature

SHM Mehr, M Craven, AI Leonov, G Keenan, L Cronin - Science, 2020 - science.org
Robotic systems for chemical synthesis are growing in popularity but can be difficult to run
and maintain because of the lack of a standard operating system or capacity for direct …

Open Babel: An open chemical toolbox

NM O'Boyle, M Banck, CA James, C Morley… - Journal of …, 2011 - Springer
Background A frequent problem in computational modeling is the interconversion of
chemical structures between different formats. While standard interchange formats exist (for …

The Chemistry Development Kit (CDK): An open-source Java library for chemo-and bioinformatics

C Steinbeck, Y Han, S Kuhn, O Horlacher… - Journal of chemical …, 2003 - ACS Publications
The Chemistry Development Kit (CDK) is a freely available open-source Java library for
Structural Chemo-and Bioinformatics. Its architecture and capabilities as well as the …

Community Resource for Innovation in Polymer Technology (CRIPT): A Scalable Polymer Material Data Structure

DJ Walsh, W Zou, L Schneider, R Mello, ME Deagen… - 2023 - ACS Publications
Community Resource for Innovation in Polymer Technology (CRIPT): A Scalable Polymer
Material Data Structure | ACS Central Science ACS ACS Publications C&EN CAS Find my …

[CITAS][C] An Introduction to Chemoinformatics

AR Leach - 2007 - books.google.com
Chemoinformatics draws upon techniques from many disciplines including computer
science, mathematics, computational chemistry and data visualisation to tackle these …

Extraction of chemical structures and reactions from the literature

DM Lowe - 2012 - repository.cam.ac.uk
The ever increasing quantity of chemical literature necessitates the creation of automated
techniques for extracting relevant information. This work focuses on two aspects: the …

The materials science procedural text corpus: Annotating materials synthesis procedures with shallow semantic structures

S Mysore, Z Jensen, E Kim, K Huang… - arxiv preprint arxiv …, 2019 - arxiv.org
Materials science literature contains millions of materials synthesis procedures described in
unstructured natural language text. Large-scale analysis of these synthesis procedures …

OSCAR4: a flexible architecture for chemical text-mining

DM Jessop, SE Adams, EL Willighagen… - Journal of …, 2011 - Springer
Abstract The Open-Source Chemistry Analysis Routines (OSCAR) software, a toolkit for the
recognition of named entities and data in chemistry publications, has been developed since …