ConPred II: a consensus prediction method for obtaining transmembrane topology models with high reliability
ConPred II: a consensus prediction method for obtaining transmembrane topology models with high reliability
复制标题
DOI：
10.1093/nar/gkh380
复制
发表时间：
2004-07-01
影响因子：
14.9
通讯作者：
Shimizu, T
中科院分区：
文献类型：
--
作者：
Arai, M;Mitsuke, H;Shimizu, T
ConPred II（http：bioinfo.si.hirosaki-u.ac.jp/similar toConPred 2/）是一种用于预测跨膜（TM）拓扑结构[即TM片段（TMS）的数量、TMS位置和N尾位置]的服务器，该服务器基于共识方法，通过组合几种提出的方法的结果。ConPred II系统是由我们小组早先提出的ConPred_elite和ConPred_all（以前称为ConPred）构建的。ConPred_elite的预测准确率几乎是100%，这是通过牺牲预测覆盖率（20-30%）来实现的。ConPred_all预测所有输入序列的TM拓扑结构，其准确度比单独提出的方法提高了11%。在ConPred II系统中，输入TM蛋白序列的TM拓扑预测按照两步过程执行：（i）输入序列首先通过ConPred_elite程序运行;（ii）将ConPred_elite未给出TM拓扑的序列递送至ConPred_all程序以进行TM拓扑预测。用户可以通过向服务器提交序列来自动访问ConPred II系统。ConPred II服务器将返回预测的TM拓扑模型及其内容的图形表示（亲水图、预测TMS的螺旋轮图和蛇形图）。
ConPred II (http://bioinfo.si.hirosaki-u.ac.jp/similar toConPred2/) is a server for the prediction of transmembrane (TM) topology [i.e. the number of TM segments (TMSs), TMS positions and N-tail location] based on a consensus approach by combining the results of several proposed methods. The ConPred II system is constructed from ConPred_elite and ConPred_all (previously named ConPred), proposed earlier by our group. The prediction accuracy of ConPred_elite is almost 100%, which is achieved by sacrificing the prediction coverage (20-30%). ConPred_all predicts TM topologies for all the input sequences with accuracies improved by up to 11% over individual proposed methods. In the ConPred II system, the TM topology prediction of input TM protein sequences is executed following a two-step process: (i) input sequences are first run through the ConPred_elite program; (ii) sequences for which ConPred_elite does not give the TM topology are delivered to the ConPred_all program for TM topology prediction. Users can get access to the ConPred II system automatically by submitting sequences to the server. The ConPred II server will return the predicted TM topology models and graphical representations of their contents (hydropathy plots, helical wheel diagrams of predicted TMSs and snake-like diagrams).