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STRING Protein networks from data and text mining Lars Juhl Jensen 9.6 million proteins functional associations guilt by association genomic context gene fusion Korbel et al., Nature Biotechnology, 2004 phylogenetic profiles Korbel et al., Nature Biotechnology, 2004 experimental data gene coexpression physical interactions Jensen & Bork, Science, 2008 curated knowledge protein complexes pathways Letunic & Bork, Trends in Biochemical Sciences, 2008 many databases different formats different identifiers variable quality not comparable hard work parsers mapping files quality scores von Mering et al., Nucleic Acids Research, 2005 score calibration von Mering et al., Nucleic Acids Research, 2005 implicit weighting by quality common scale missing most of the data >10 km too much to read computer as smart as a dog teach it specific tricks named entity recognition comprehensive lexicon cyclin dependent kinase 1 CDC2 orthographic variation spaces and hyphens cyclin dependent kinase 1 cyclin-dependent kinase 1 prefixes and suffixes CDC2 hCdc2 “black list” SDS co-mentioning counting within documents within paragraphs within sentences quality scores score calibration integration visualization string-db.org Szklarczyk et al., Nucleic Acids Research, 2015 web resource download files REST API Bioconductor package Cytoscape App protein query disease query Acknowledgments Damian Szklarczyk John "Scooter" Morris Helen Cook Michael Kuhn Stefan Wyder Milan Simonovic Alberto Santos Nadezhda Doncheva Alexander Roth Peer Bork Christian von Mering
