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HIPPIE specifications

Information


Unique identifier OMICS_02899
Name HIPPIE
Alternative name Human Integrated Protein-Protein Interaction rEference
Interface Web user interface
Restrictions to use None
Input data A single UniProt identifier (id or accession), gene symbol, Entrez gene ids.
Output data Show in browser - text (output the table of interactions in the browser), show in browser - visualization (use Cytoscape.js to visualize the constructed subnetwork), HIPPIE tab file format (the interactions are written to a simple text file), PSI-MI TAB 2.5 output format (interactions are written to the standardized MITAB format)
Output format JS, MITAB, TXT
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Documentation


Maintainer


  • person_outline Miguel A. Andrade-Navarro

Publications for Human Integrated Protein-Protein Interaction rEference

HIPPIE citations

 (42)
library_books

Integrated TCGA analysis implicates lncRNA CTB 193M12.5 as a prognostic factor in lung adenocarcinoma

2018
PMCID: 5824544
PMID: 29483846
DOI: 10.1186/s12935-018-0513-3

[…] truct an lncRNA-PCG regulatory network of the five lncRNAs in the Blue module and the 178 highly correlated PCGs selected in the previous section. Protein–protein interaction data were retrieved from Human Integrated Protein–Protein Interaction rEference database and visualized with Cytoscape. A regulatory network with 683 connections and 182 nodes was constructed. As shown in Fig. , the majority […]

library_books

Quantitative mass spectrometry analysis reveals a panel of nine proteins as diagnostic markers for colon adenocarcinomas

2018
Oncotarget
PMCID: 5862596
PMID: 29568375
DOI: 10.18632/oncotarget.24418

[…] propagation procedure described in Vanunu et al. 2010 [] to identify additional disease related proteins. Briefly, a list of prior-knowledge proteins was diffused over a background network-here, the HIPPIE protein-protein interaction (PPI) network [] – and a pre-defined cut-off based on relatedness score was used to choose the strongest first degree neighbours. We separately propagated the up- an […]

library_books

CellMap visualizes protein protein interactions and subcellular localization

2018
F1000Res
PMCID: 5811672
PMID: 29497493
DOI: 10.5256/f1000research.13762.r27544

[…] ns (e.g. inclusion of protein trafficking). An instance of the tool with localization data from a previous publication that includes protein localizations of the human proteome and PPI data from the Human Integrated Protein-Protein Interaction rEference (HIPPIE) resource is available at http://cell.dallago.us. […]

library_books

Proteomic analysis defines kinase taxonomies specific for subtypes of breast cancer

2018
Oncotarget
PMCID: 5884642
PMID: 29643987
DOI: 10.18632/oncotarget.24337

[…] Protein-protein interaction information was compiled from multiple public data sources for the 254 kinases analyzed in this data set and included, the Human Integrated Protein-Protein Interaction rEference (HIPPIE) (updated 9/1/2015; []), Human Protein Reference Database (HPRD Release 9; []), Interlogous Interaction Database (I2D version 2.9; [, ]), […]

library_books

The integration of weighted gene association networks based on information entropy

2017
PLoS One
PMCID: 5741255
PMID: 29272314
DOI: 10.1371/journal.pone.0190029

[…] such as in vitro X-ray crystallography get higher scores than those obtained from high-throughput experiments such as affinity based technologies. Schaefer et al generated a scored human PPI network HIPPIE (Human Integrated Protein-Protein Interaction rEference) from multiple sources, and developed an expertly curated scoring scheme that takes into account three types of information: superiority […]

library_books

Single Nucleotide Variations of the Human Nuclear Hormone Receptor Genes in 60,000 Individuals

2017
PMCID: 5779106
PMID: 29379896
DOI: 10.1210/js.2017-00406

[…] hat NRs are expressed if fragments per kilobase of exon per million mapped of a NR messenger RNA are >1, as previously suggested []. The number of proteins interacting with NRs was retrieved from the Human Integrated Protein-Protein Interaction Reference browser (http://cbdm-01.zdv.uni-mainz.de/~mschaefer/hippie), where the interaction is determined based on the amount and quality of the evidence […]

Citations

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HIPPIE institution(s)
Faculty of Biology, Johannes Gutenberg Universität, Mainz, Germany; Institute of Molecular Biology, Mainz, Germany; EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Barcelona, Spain; Universität Pompeu Fabra (UPF), Barcelona, Spain
HIPPIE funding source(s)
This work was supported by German Research Foundation [SCHA 1933/1-1]; Spanish Ministry of Economy and Competitiveness, ‘Centro de Excelencia Severo Ochoa 2013–2017’ [SEV-2012-0208]; European Union Seventh Framework Programme (FP7/2007- 2013) [n◦ HEALTH-F4-2011-278568 (PRIMES)]; Spanish Ministerio de Economía y Competitividad [Plan Nacional BIO2012-39754]; European Fund for Regional Development (EFRD).

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