Murine colon proteome and characterization of the protein pathways.
Murine colon proteome and characterization of the protein pathways.
复制标题
鼠结肠蛋白质组和蛋白质途径的表征。
DOI：
10.1186/1756-0381-5-11
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发表时间：
2012-08-28
期刊：
影响因子：
4.5
通讯作者：
Yamamoto T
中科院分区：
文献类型：
--
作者：
Magdeldin S;Yoshida Y;Li H;Maeda Y;Yokoyama M;Enany S;Zhang Y;Xu B;Fujinaka H;Yaoita E;Sasaki S;Yamamoto T
目前的蛋白质组学研究大多集中在病理疾病（如结直肠癌）引起的蛋白质组改变，而不是正常健康状态下的结肠。因此，关于正常的全组织-结肠蛋白质组的信息缺乏。我们在此报告了一个详细的小鼠（小鼠）全组织-结肠蛋白参考数据集，该数据集由1237个自信蛋白（FDR < 2）组成，并全面了解了其肽特性、细胞和亚细胞定位、功能网络GO注释分析及其相对丰度。该数据集包括pI和Mw的宽光谱，分别在3-12和4-600 KDa之间。肉汁指数评分预测19.5%的膜性蛋白和80.5%的球形蛋白。氧化GO的层级结构和功能网络分析表明，蛋白质在恶性肿瘤中的功能及其相关性和意义，如结直肠癌中的丝裂原活化蛋白激酶（mapk8,9），成纤维细胞生长因子受体（Fgfr 2），前列腺癌中的谷胱甘肽s-转移酶（Gstp1），以及胰腺癌中的细胞分裂控制蛋白（Cdc42）， ras相关蛋白（rac1,2）。用3种不同的算法（NSAF、PAF和emPAI）计算蛋白质丰度，在正常情况下提供相对定量作为指导。这一高可信度的结肠蛋白质组目录不仅将为进一步研究疾病诱导的差异表达蛋白提供有用的参考，而且有助于更好地了解结肠的本体和功能吸收机制。
Most of the current proteomic researches focus on proteome alteration due to pathological disorders (i.e.: colorectal cancer) rather than normal healthy state when mentioning colon. As a result, there are lacks of information regarding normal whole tissue- colon proteome. We report here a detailed murine (mouse) whole tissue- colon protein reference dataset composed of 1237 confident protein (FDR < 2) with comprehensive insight on its peptide properties, cellular and subcellular localization, functional network GO annotation analysis, and its relative abundances. The presented dataset includes wide spectra of pI and Mw ranged from 3–12 and 4–600 KDa, respectively. Gravy index scoring predicted 19.5% membranous and 80.5% globularly located proteins. GO hierarchies and functional network analysis illustrated proteins function together with their relevance and implication of several candidates in malignancy such as Mitogen- activated protein kinase (Mapk8, 9) in colorectal cancer, Fibroblast growth factor receptor (Fgfr 2), Glutathione S-transferase (Gstp1) in prostate cancer, and Cell division control protein (Cdc42), Ras-related protein (Rac1,2) in pancreatic cancer. Protein abundances calculated with 3 different algorithms (NSAF, PAF and emPAI) provide a relative quantification under normal condition as guidance. This highly confidence colon proteome catalogue will not only serve as a useful reference for further experiments characterizing differentially expressed proteins induced from diseased conditions, but also will aid in better understanding the ontology and functional absorptive mechanism of the colon as well.
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影响因子：
7
作者：
Ishihama, Y;Oda, Y;Mann, M
通讯作者：
Mann, M
影响因子：
4.4
作者：
Yi, Hong;Li, Xin-Hui;Xiao, Zhi-Qiang
通讯作者：
Xiao, Zhi-Qiang
DOI：
10.1093/bioinformatics/btp101
发表时间：
2009-04-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Bindea G;Mlecnik B;Hackl H;Charoentong P;Tosolini M;Kirilovsky A;Fridman WH;Pagès F;Trajanoski Z;Galon J
通讯作者：
Galon J
影响因子：
7.4
作者：
Liu, HB;Sadygov, RG;Yates, JR
通讯作者：
Yates, JR
影响因子：
--
作者：
Tanabe, Mao;Kanehisa, Minoru
通讯作者：
Kanehisa, Minoru