CBE 438: Biomolecular Engineering

A collection of 13075 Pathway/Genome Databases (PGDBs), plus software tools for understanding their data. These tools for are used for navigating, visualizing, and analyzing the underlying databases, and for analyzing omics data. The BioCyc website provides a suite of software tools for database searching and visualization, for omics data analysis, and for comparative genomics and comparative pathway questions.

Provides access to key cancer dependencies analytical and visualization tools.

Genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. Ensembl annotates genes, computes multiple alignments, predicts regulatory function and collects disease data. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species.

Tool used for protein structure visualization and analysis. The Princeton University Library has paid for the license to this resource. Contact the Biology Librarian for access information.

Guide to commonly encountered steps and questions faced on the path from raw RNA-seq data to biological conclusion.

Molecular biology software that allows researchers and labs to document DNA constructs in an a shareable, electronic format. It also allows for the creation of seamless gene fusions, offers a unique restriction cloning interface, and automatically records the steps in a cloning process. The SnapGene format matches GenBank standards but adds options such as color, directionality, and segments.

Tool for customized searches of Zebrafish related biological data including genes, proteins, fish, and reagents.

SBOL is an open standard for the representation of in silico biological designs.