Matoryresponse, oxidative stress, cytoskeletal disruption, and vascular damage as altered significantly > 자유게시판

Matoryresponse, oxidative stress, cytoskeletal disruption, and vascular damage as altered significantly at 24 h after SCI in rats [65]. Heat shock proteins were significantly differentially expressed in a rat model of SCI found in a study using iTRAQ and 2D LC S/MS [66] pointing to their potential role after SCI. 2-DE followed by nano ultra-high performance liquid chromatography-electrospray tandem mass spectrometry (NanoUPLC SI?MS/MS) identified proteins associated with apoptosis, nerve signal transduction and metabolism to be differentially regulated in rat SCI followed by treatment with basic fibroblast growth factor long circulation liposome (bFGF + LCL) [67].Proteomics of SCI in India Currently, even though there are numerous studies being done on various, mostly rehabilitative [68], epidemiological [69], financial [70], clinical [71, 72] and surgical [73] aspects of SCI in India, use of proteomics approach to get into the molecular level has been done only in our laboratory. We have been focusing on the molecular interplay occurring in the secondary phase of SCI, which essentially manifests as the various phenotypic dysfunctions associated with this stage. For this purpose we conducted a clinical sampling with 14 SCI patients at PubMed ID:https://www.ncbi.nlm.nih.gov/pubmed/25751659 1? days post injury and contrasted their cerebrospinal fluid (CSF) from complete and incomplete injury types. The injury severities were ascertained using the American Spinal Injury Association (ASIA) Impairment Scale (AIS) [74]. 2-DE followed by MALDI MS/MS was employed to identify CSF proteins from SCI patients and furthermore, 2D-DIGE was conducted to contrast the different AIS samples of CSF [56]. Forty-nine proteins were identified from CSF of SCI cases. Eight of them were differentially abundant (?.5 fold) among AIS A (complete injury) and AIS C (incomplete injury) CSF samples. The status of the differentially abundant proteins among the AIS groups was further checked for CSF taken at 15?0 post injury from an additional 6 patients. Application of bioinformatics tools to the identified proteins from SCI CSF yielded a protein rotein interaction network (PPIN) consisting of the identified proteins and their secondary interactors. From this network, interaction modules were created where protein members within a module interact more with one another Nelfinavir (Mesylate) than with proteins outside of the module. We adopted the Newman irvans modularization (NGM) algorithm [75?7]. Thus a modularised network was formed. The network was further enriched [78] to identify biological functions associated with the modules. This was done using GeneCodis3 [79].Sengupta et al. Clin Proteom (2016) 13:Page 5 ofFinally identifying the modules where the differentially abundant proteins were found, we zeroed in on the perturbed biological pathways post SCI at the secondary phase. The significantly perturbed pathways were mRNA metabolism, protein phosphorylation, iron transport, lipid and ATP catabolism, tRNA and rRNA transcription and DNA repair. We therefore identified some molecular pathways that lose their balance post SCI and we started off with identifying the entire proteome of SCI CSF and gradually narrowing down from there. The employment of proteomics tools was immensely useful in our case as we did not start with any particular protein or pathway in mind. This holistic approach with gradual focus on the important results is thus a preferred choice not only in the domain of biomarker discovery but also in a situation like ours, wh.