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PPInS specifications


Unique identifier OMICS_31511
Name PPInS
Alternative name Protein-Protein Interaction Sitebase
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained No


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Publication for Protein-Protein Interaction Sitebase

PPInS citations


ModuleDiscoverer: Identification of regulatory modules in protein protein interaction networks

Sci Rep
PMCID: 5764996
PMID: 29323246
DOI: 10.1038/s41598-017-18370-2

[…] We presented ModuleDiscoverer, a heuristic approach for the identification of regulatory modules in large-scale, whole-genome PPINs. The application of ModuleDiscoverer becomes favorable with increasing size and density of PPINs. Compared to the MCE-based approach, we demonstrated that ModuleDiscoverer identifies modules tha […]


Network analyses identify liver‐specific targets for treating liver diseases

Mol Syst Biol
PMCID: 5572395
PMID: 28827398
DOI: 10.15252/msb.20177703

[…] sion levels were high in the liver (Fig K) and other tissues analyzed (Fig G and H). Our analysis indicates that protein interactions provide evidence for increased co‐expression by RNs compared with PPINs in metabolic tissues.We also identified the TFs and proteins that were highly co‐expressed with their target genes or proteins in RNs and PPINs, respectively (|r| > 0.1 and Kolmogorov–Smirnov (K […]


Investigating the mechanism of hepatocellular carcinoma progression by constructing genetic and epigenetic networks using NGS data identification and big database mining method

PMCID: 5346727
PMID: 27821810
DOI: 10.18632/oncotarget.13100

[…] ded to, and processed in, the user-friendly UCSC Cancer Genomics browser []. In this study, the level-3 gene expression, miRNA expression, and DNA methylation profiles were used to construct GRNs and PPINs. One American Indian, 148 Asian, 15 African American, 156 Caucasian, and 18 patients of undefined ethnicity were included in this study. The disease stage was classified according to the TNM (T: […]


A polybasic motif in ErbB3 binding protein 1 (EBP1) has key functions in nucleolar localization and polyphosphoinositide interaction

PMCID: 4941749
PMID: 27118868
DOI: 10.1042/BCJ20160274

[…] Lipid overlay assay was carried out using PIP Strips™ (Echelon Biosciences) spotted with 100 pmol of each of the 7 PPIns in addition to other phospholipids, and PIP Arrays™ spotted with 1.56–100 pmol of PtdIns or each of the 7 PPIns. PIP strips™ and arrays were incubated with blocking buffer (3% fatty acid-free BS […]


Interlog protein network: an evolutionary benchmark of protein interaction networks for the evaluation of clustering algorithms

BMC Bioinformatics
PMCID: 4595048
PMID: 26437714
DOI: 10.1186/s12859-015-0755-1

[…] In the present study, five well-known different clustering algorithms (MCL, RNSC, CR, LD and GAPPI) were used to cluster the PPINs and IPN. The general characteristics of each algorithm are shown in the Table  and the associated references [, , –]. We presented further details regarding these algorithms in the Additional fi […]


GreedyPlus: An Algorithm for the Alignment of Interface Interaction Networks

Sci Rep
PMCID: 4499810
PMID: 26165520
DOI: 10.1038/srep12074

[…] rom 72 to 20. Due to this loss of resolution, the GRAAL algorithm loses power in discriminating between vertex pairings (see ). Furthermore, the exaggerated spoke-hub network of IINs in comparison to PPINs, for which the GRAAL algorithm was designed, results in the GRAAL algorithm preferring to align non-orthologous vertices to orthologous ones.H-GRAAL, which focuses on aligning vertices, also fai […]


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PPInS institution(s)
Department of Computational Sciences, School of Basic and Applied Sciences, Central University of Punjab, Bathinda, India; Department of Human Genetics and Molecular Medicine, School of Health Sciences, Central University of Punjab, Bathinda, India
PPInS funding source(s)
Supported by University Grants Commission (UGC), India, in the form of UGC-NET JRF awards and major research grant (MRP).

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