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The interactions of protein kinases and phosphatases with their regulatory subunits and substrates underpin cellular regulation. We identified a kinase and phosphatase interaction (KPI) network of 1844 interactions in budding yeast by mass spectrometric analysis of protein complexes. The KPI network contained many dense local regions of interactions that(More)
Supplementary Figure 2. Administration module. A) Home page of the Admin Office, detailing available options. B) Creation of a new project in Project Manager. Projects are associated with a specific research laboratory or working group, and generally contains results from a single species to which filter sets may be applied. " Frequency " refers here to the(More)
Significance Analysis of INTeractome (SAINT) is a software package for scoring protein-protein interactions based on label-free quantitative proteomics data (e.g., spectral count or intensity) in affinity purification-mass spectrometry (AP-MS) experiments. SAINT allows bench scientists to select bona fide interactions and remove nonspecific interactions in(More)
Quantitative interaction proteomics data can be a challenge to efficiently analyze and subsequently present to an audience in a simple and easy to understand format that still conveys sufficient levels of information. Here we present freely accessible and open-source web tools for displaying multiple parameters from quantitative protein-protein interaction(More)
Neurons exposed to Aβ will be apoptotic in Alzheimer's disease (AD) brains or in vitro. The aim of the current study is to explore the neuroprotective mechanism that 7,8-dithydroxycoumarin inhibits JNK and p38MAPK-mediated Aβ-induced neurotoxicity. In vitro cultures of SH-SY5Y human neuroblastoma cell lines were treated with 7,8-dithydroxycoumarin (0, 1, 5(More)
The specific myelin component Nogo protein is one of the major inhibitory molecules of spinal cord axonal outgrowth following spinal cord injury. The present study aimed to investigate the effects of silencing Nogo protein with shRNA interference on the promotion of functional recovery in a rat model with spinal cord hemisection. Nogo-A short hairpin RNAs(More)
The repair of peripheral nerve injury after complete amputation is difficult, and even with anastomosis, the rapid recovery of nerve function remains challenging. Curcumin, extracted from plants of the genus Curcuma, has been shown to have anti-oxidant and anti-inflammatory properties and to improve sciatic nerve crush injury in rats. Here, we determined(More)
Affinity purification coupled with mass spectrometric identification (AP-MS) is now a method of choice for charting novel protein-protein interactions, and has been applied to a large number of both small scale and high-throughput studies1. However, general and intuitive computational tools for sample tracking, AP-MS data analysis, and annotation have not(More)
BACKGROUND We aimed to use the animal model of dynamic fixation to examine the interaction of the pedicle screw surface with surrounding bone, and determine whether pedicle screws achieve good mechanical stability in the vertebrae. METHODS Twenty-four goats aged 2-3 years had Cosmic ® pedicle screws implanted into both sides of the L2-L5 pedicles. Twelve(More)
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