- ELM 2016-data update and new functionality of the eukaryotic linear motif resource. [PMID: 26615199]
Holger Dinkel, Kim Van Roey, Sushama Michael, Manjeet Kumar, Bora Uyar, Brigitte Altenberg, Vladislava Milchevskaya, Melanie Schneider, Helen Kühn, Annika Behrendt, Sophie Luise Dahl, Victoria Damerell, Sandra Diebel, Sara Kalman, Steffen Klein, Arne C Knudsen, Christina Mäder, Sabina Merrill, Angelina Staudt, Vera Thiel, Lukas Welti, Norman E Davey, Francesca Diella, Toby J Gibson
Nucleic acids research 2016:44(D1)
1 Citations (Google Scholar as of 2016-01-20)
Abstract: The Eukaryotic Linear Motif (ELM) resource (http://elm.eu.org) is a manually curated database of short linear motifs (SLiMs). In this update, we present the latest additions to this resource, along with more improvements to the web interface. ELM 2016 contains more than 240 different motif classes with over 2700 experimentally validated instances, manually curated from more than 2400 scientific publications. In addition, more data have been made available as individually searchable pages and are downloadable in various formats. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.
- The eukaryotic linear motif resource ELM: 10 years and counting. [PMID: 24214962]
Holger Dinkel, Kim Van Roey, Sushama Michael, Norman E Davey, Robert J Weatheritt, Diana Born, Tobias Speck, Daniel Krüger, Gleb Grebnev, Marta Kuban, Marta Strumillo, Bora Uyar, Aidan Budd, Brigitte Altenberg, Markus Seiler, Lucía B Chemes, Juliana Glavina, Ignacio E Sánchez, Francesca Diella, Toby J Gibson
Nucleic acids research 2014:42(Database issue)
132 Citations (Google Scholar as of 2016-01-14)
Abstract: The eukaryotic linear motif (ELM http://elm.eu.org) resource is a hub for collecting, classifying and curating information about short linear motifs (SLiMs). For >10 years, this resource has provided the scientific community with a freely accessible guide to the biology and function of linear motifs. The current version of ELM contains ?200 different motif classes with over 2400 experimentally validated instances manually curated from >2000 scientific publications. Furthermore, detailed information about motif-mediated interactions has been annotated and made available in standard exchange formats. Where appropriate, links are provided to resources such as switches.elm.eu.org and KEGG pathways.
- ELM--the database of eukaryotic linear motifs. [PMID: 22110040]
Holger Dinkel, Sushama Michael, Robert J Weatheritt, Norman E Davey, Kim Van Roey, Brigitte Altenberg, Grischa Toedt, Bora Uyar, Markus Seiler, Aidan Budd, Lisa Jödicke, Marcel A Dammert, Christian Schroeter, Maria Hammer, Tobias Schmidt, Peter Jehl, Caroline McGuigan, Magdalena Dymecka, Claudia Chica, Katja Luck, Allegra Via, Andrew Chatr-Aryamontri, Niall Haslam, Gleb Grebnev, Richard J Edwards, Michel O Steinmetz, Heike Meiselbach, Francesca Diella, Toby J Gibson
Nucleic acids research 2012:40(Database issue)
192 Citations (Google Scholar as of 2016-01-14)
Abstract: Linear motifs are short, evolutionarily plastic components of regulatory proteins and provide low-affinity interaction interfaces. These compact modules play central roles in mediating every aspect of the regulatory functionality of the cell. They are particularly prominent in mediating cell signaling, controlling protein turnover and directing protein localization. Given their importance, our understanding of motifs is surprisingly limited, largely as a result of the difficulty of discovery, both experimentally and computationally. The Eukaryotic Linear Motif (ELM) resource at http://elm.eu.org provides the biological community with a comprehensive database of known experimentally validated motifs, and an exploratory tool to discover putative linear motifs in user-submitted protein sequences. The current update of the ELM database comprises 1800 annotated motif instances representing 170 distinct functional classes, including approximately 500 novel instances and 24 novel classes. Several older motif class entries have been also revisited, improving annotation and adding novel instances. Furthermore, addition of full-text search capabilities, an enhanced interface and simplified batch download has improved the overall accessibility of the ELM data. The motif discovery portion of the ELM resource has added conservation, and structural attributes have been incorporated to aid users to discriminate biologically relevant motifs from stochastically occurring non-functional instances.