I'm looking to find molecular weights from mass spec experiments to identify compounds. Is there a database aside from Human Metabolome Database HMDB)? I am coming across molecular weights that don't appear in HMDB.
Yes, there are several other metabolome databases available aside from the Human Metabolome Database (HMDB). Here are some examples:
Metlin: A metabolite database that includes both experimental and predicted mass spectrometry data for a wide range of metabolites, including those from human and other species.
KEGG: A comprehensive resource for understanding metabolic pathways in various organisms, including human. It contains information on biochemical pathways, enzymes, and metabolites.
LipidMaps: A database of lipids, including information on their structures, physical properties, and associated enzymes and pathways.
BioCyc: A collection of databases that includes information on metabolic pathways, enzymes, and metabolites for a range of organisms.
ECMDB: The E. coli Metabolome Database, which provides information on the metabolites and metabolic pathways of Escherichia coli.
MetaboLights: A database of metabolomics studies, containing information on experimental designs, protocols, and raw data, as well as curated metadata and metabolite annotations.
These are just a few examples of the many metabolome databases that are available. Each database has its own strengths and limitations, and the choice of database will depend on the specific research question or application.