Extracting chemical reactions from text using Snorkel

Extracting and connecting chemical structures from text sources using chemicalize.org

BACKGROUND Exploring bioactive chemistry requires navigating between structures and data from a variety of text-based sources. While PubChem currently includes approximately 16 million document-extracted structures (15 million from patents) the extent of public inter-document and document-to-database links is still well below any estimated total, especially for journal articles. A major expansi...

Reaction Decoder Tool (RDT): extracting features from chemical reactions

UNLABELLED Extracting chemical features like Atom-Atom Mapping (AAM), Bond Changes (BCs) and Reaction Centres from biochemical reactions helps us understand the chemical composition of enzymatic reactions. Reaction Decoder is a robust command line tool, which performs this task with high accuracy. It supports standard chemical input/output exchange formats i.e. RXN/SMILES, computes AAM, highlig...

Extracting Text from Proof

Extracting Text from PostScript

Finding structure in multiple streams of datais an important problem. Consider thestreams of data flowing from a robot’s sen-sors, the monitors in an intensive care unit,or periodic measurements of various indica-tors of the health of the economy. Thereis clearly utility in determining how currentand past values in those streams are relatedto future values. W...

Extracting Text from Proofs

In this paper, we propose a method for presenting formal proofs in an intelligible form. We describe a transducer from proof objects (terms in the Calculus of Constructions) to pseudo natural language that has been implemented for the Coq system Extraction de Texte a partir de Preuves R esum e : Ce papier pr esente une m ethode pour produire a partir de preuves formelles une explication textuel...