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EndoNet: an information resource about endocrine networks

A. Potapov
2006 Nucleic Acids Research  
EndoNet is a new database that provides information 10 about the components of endocrine networks and their relations.  ...  a network can be reconstructed and visualized.  ...  For commercial re-use, please contact journals.permissions@oxfordjournals.org , we present a new database, EndoNet, which provides 75 information about the components of endocrine networks and their  ... 
doi:10.1093/nar/gkj121 pmid:16381928 pmcid:PMC1347483 fatcat:7bn4ixyzl5a6hjhjspnvrdqfqa

EndoNet: an information resource about the intercellular signaling network

Jürgen Dönitz, Edgar Wingender
2014 BMC Systems Biology  
Description: EndoNet is an information resource about the endocrine system in human.  ...  Conclusion: EndoNet is an important and unique information resource about the intercellular signaling network.  ...  Acknowledgements We would like to thank the numerous annotators who extracted the information from the literature. Also the support of A.P.  ... 
doi:10.1186/1752-0509-8-49 pmid:24758335 pmcid:PMC4017807 fatcat:i3kyp2ytjzgnxakcbrdfrez5mi

EndoNet: an information resource about regulatory networks of cell-to-cell communication

J. Donitz, B. Goemann, M. Lize, H. Michael, N. Sasse, E. Wingender, A. P. Potapov
2007 Nucleic Acids Research  
EndoNet is an information resource about intercellular regulatory communication.  ...  Whenever expression, synthesis and/or secretion of another hormone are part of this response, it renders the corresponding cell an internal node of the resulting network.  ...  In contrast to many other information resources which are accessible in EndoNet via hyperlinks, Cytomer is directly embedded into the EndoNet user interface (Figure 4 ).  ... 
doi:10.1093/nar/gkm940 pmid:18045786 pmcid:PMC2238947 fatcat:icpv6in4mzbylelzygo2j64uka

Hmrbase: a database of hormones and their receptors

Mamoon Rashid, Deepak Singla, Arun Sharma, Manish Kumar, Gajendra PS Raghava
2009 BMC Genomics  
This database also provides a number of external links to other resources/databases in order to help in the retrieving of further related information.  ...  Thus, it is important to collect and compile information about hormones and their receptors.  ...  GLIDA is developed with possible implications in chemical genomic research and GPCR-related drug discovery, whereas EndoNet is an information resource about intercellular regulatory communication.  ... 
doi:10.1186/1471-2164-10-307 pmid:19589147 pmcid:PMC2720991 fatcat:4uzf6msigjfwtbus5h6nkfabfm

Integrative content-driven concepts for bioinformatics "beyond the cell"

Edgar Wingender, Torsten Crass, Jennifer D Hogan, Alexander E Kel, Olga V Kel-Margoulis, Anatolij P Potapov
2007 Journal of Biosciences  
metabolic networks as well as cellular functions in the respective tissues / organs.  ...  Modelling the processes on the different levels of complexity involved requires a comprehensive integration of information on gene regulatory events, signal transduction pathways, protein interaction and  ...  EndoNet: An information resource about endocrine networks We have recently described a new database on endocrine networks (EndoNet) which provides information about hormone and hormone receptor molecules  ... 
doi:10.1007/s12038-007-0015-2 pmid:17426389 fatcat:qudujwqtqnhrlfmcrmish6lit4

CODA: Integrating multi-level context-oriented directed associations for analysis of drug effects

Hasun Yu, Jinmyung Jung, Seyeol Yoon, Mijin Kwon, Sunghwa Bae, Soorin Yim, Jaehyun Lee, Seunghyun Kim, Yeeok Kang, Doheon Lee
2017 Scientific Reports  
Here, we reconstruct an anatomical context-specific network by assigning contexts to biological associations using protein expression data and scientific literature.  ...  Yet, most of networks used in the previous research have not included context information even though biological associations actually do appear in the specific contexts.  ...  Acknowledgements We thank to the distributors of well-established databases, python, R project, and R libraries used in this research, including KEGG, BioGRID, TRANSFAC, EndoNet, HPA, CTD, GO, PhenoGO,  ... 
doi:10.1038/s41598-017-07448-6 pmid:28790372 pmcid:PMC5548804 fatcat:f34b5xhu35c53ce6r7qsskvkvm

The ontology-based answers (OBA) service: a connector for embedded usage of ontologies in applications

Jürgen Dönitz, Edgar Wingender
2012 Frontiers in Genetics  
Semantic functions implement knowledge about the complex semantics of an ontology beyond the class hierarchy and "partOf" relations.  ...  The semantic web depends on the use of ontologies to let electronic systems interpret contextual information.  ...  PROJECT: EndoNet For the upcoming new web interface for EndoNet, an information resource of the human endocrine system (Dönitz et al., 2008) , a semantic search, similar to the search function described  ... 
doi:10.3389/fgene.2012.00197 pmid:23060901 pmcid:PMC3464866 fatcat:klquzdvqhvazrpuzvv77fgf6li

A network model of genomic hormone interactions underlying dementia and its translational validation through serendipitous off-target effect

Erfan Younesi, Martin Hofmann-Apitius
2013 Journal of Translational Medicine  
Methods: Using an integrative knowledge-and data-driven approach, a global hormone interaction network in the context of dementia was constructed, which was further filtered down to a model of convergent  ...  Conclusions: The integrated network model of hormone interactions underlying dementia may serve as an initial translational platform for identifying potential therapeutic targets and candidate biomarkers  ...  We plan to keep the DHN model up to date -within the boundaries of available resources -by implementing an alert system that automatically collects new information published on the role of hormone signaling  ... 
doi:10.1186/1479-5876-11-177 pmid:23885764 pmcid:PMC3733613 fatcat:52i4zim53ja7be77pvhqkk2jyi

Predicting cross-tissue hormone-gene relations using balanced word embeddings [article]

Aditya Jadhav, Tarun Kumar, Mohit Raghavendra, Tamizhini Loganathan, Manikandan Narayanan
2021 bioRxiv   pre-print
Model training and evaluation are enabled by a unified dataset called HGv1 of ground-truth associations between genes and known endocrine hormones that we had compiled.  ...  Large volumes of biomedical literature present an opportunity to build whole-body human models comprising both within-tissue and across-tissue interactions among genes.  ...  networks by literature-driven approaches.  ... 
doi:10.1101/2021.01.28.428707 fatcat:eogujpedk5fwhkcl4dksreqysy