Mass Spectrometry Resources:

• A primer on mass spectrometry from Waters
• What Is Mass Spec – educational videos from the American Society for Mass Spectrometry (ASMS)
• Ionsource – an educational resource on mass spectrometry with some basic tutorials
• BasePeak – MS-centered resources from Spectroscopy Now
• Peptide Calculator – A tool to convert one or three letter peptide sequences to masses, also includes calculation of hydrophobicity, net charge at different pH values, isoelectric point, and the hydrophilicity ratio
• Oligonucleotide Calculator– A tool for calculating oligonucleotide mass from a sequence
• SIS MS Tools – Various tools for calculating monoisotopic mass, visualizing spectra, and more
• Monoisotopic Mass to Formula Calculator – Generates possible molecular formulae from a monoisotopic mass within a specified mass accuracy

Proteomics Resources:

• Mass spectrometry and proteomics basics – excellent introductory video tutorials
• University of Washington’s Proteomics Resource
• Lectures and tutorials on targeted proteomics

Metabolomics Databases:

• NPAtlas – Microbial natural products, available in TSV format
• COCONUT – Animal, plant, and microbial natural products. Available as a MongoDB database
• MarinLit – Marine natural products database integrating the AntiMarin database
• Metlin – Small molecule database with MS/MS search tools
• StreptomeDB – Streptomyces secondary metabolite database with scaffold exploration tools

Proteomics Databases:

• UniProt – protein sequences
• NCBI – protein sequences
• MaxQB – MaxQuant database of experimental proteomics data sets
• The Human Proteome Atlas
• Gene Cards – the human gene database
• KEGG – Kyoto Encyclopedia of Genes and Genomes
• String – database for protein-protein interactions
• Corum – comprehensive resource for mammalian protein complexes
• Phosida – post-translational modifications database
• Phospho.ELM – a database of S/T/Y phosphorylation sites
• PhosphoSite Plus – resources for the study of post-translational modifications
• Protein Prospector – tools for mining sequence databases
• EXPASy resources
• The most exhaustive current compendium (a bit intimidating) of protein and proteomic databases, tools for mass spectrometry and data visualization

Journals:

• Journal of Proteome Research
• Molecular and Cellular Proteomics
• Proteomics
• Journal of Natural Products
• Marine Drugs
• Metabolomics
• Metabolites