01512nas a2200157   4500008004100000245005100041210005100092260000800143300001400151490000600165520103500171100002501206700002101231700002301252856007901275       2011                        eng d00aSystems view of the protein expression process0 aSystems view of the protein expression process  cDEC  a139–1500 v53 a<p>Many biological processes are regulated by changing the concentration and activity of proteins. The presence of a protein at a given subcellular location at a given time with a certain conformation is the result of an apparently sequential process. The rate of protein formation is influenced by chromatin state, and the rates of transcription, translation, and degradation. There is an exquisite control system where each stage of the process is controlled both by seemingly unregulated proteins as well as through feedbacks mediated by RNA and protein products. Here we review the biological facts and mathematical models for each stage of the protein production process. We conclude that advances in experimental techniques leading to a detailed description of the process have not been matched by mathematical models that represent the details of the process and facilitate analysis. Such an exercise is the first step towards development of a framework for a systems biology analysis of the protein production process.</p>1 aGokhale, Sucheta, A.1 aNyayanit, Dimpal1 aGadgil, Chetan, J.  uhttps://library.ncl.res.in/content/systems-view-protein-expression-process01831nas a2200181   4500008004100000022001400041245009000055210006900145260011000214300001400324490000600338520108900344100002501433700002101458700002701479700002301506856012001529       2012                        eng d  a1742-206X00aSimple method for incorporating dynamic effects of intronic miRNA mediated regulation0 aSimple method for incorporating dynamic effects of intronic miRN  aTHOMAS GRAHAM HOUSE, SCIENCE PARK, MILTON RD, CAMBRIDGE CB4 0WF, CAMBS, ENGLANDbROYAL SOC CHEMISTRYcAPR  a2145-21520 v83 a<p>The importance of microRNA (miRNA) in modulating gene expression at the post-transcriptional level is well known. Such regulation has been shown to influence the dynamics of several regulatory networks including the cell cycle. In this study we incorporated regulatory effects of intronic miRNA into an existing mathematical model of the cell cycle through the use of an existing `proxy' protein - the host protein. It was observed that the incorporation of intronic miRNA mediated regulation improved the performance of the model resulting in a closer match to experimental results. To test the universality of this approach we compared the effects of intronic miRNA mediated regulation and host protein mediated regulation. Further, we compared miRNA mediated and protein mediated positive and negative feedback regulations of the target protein. We found that the target protein profiles were predominantly similar. These observations show the applicability of our method for incorporating intronic miRNA mediated dynamic effects in models for regulation of gene expression.</p>1 aGokhale, Sucheta, A.1 aHariharan, Manoj1 aBrahmachari, Samir, K.1 aGadgil, Chetan, J.  uhttps://library.ncl.res.in/content/simple-method-incorporating-dynamic-effects-intronic-mirna-mediated-regulation-0