http://blogger.org.cn/blog/more.asp?name=Lee&id=11851

然后将newString写入文件（或存入数据库）。用UltraEdit打开文件看到是乱码（因为编码是UTF-8，在Protege中打开该文件时中文的显示是正确的，因为Protege会将UTF-8转换为操作系统默认的编码格式显示）。可以在UltraEdit中进行编码转换（UTF-8到Unicode）后显示的是正确的中文，但是该转换不能回复，即再进行Unicode到UTF-8转换后在Protege中打开中文后，中文的显示不正确。

好像我的回答有点文不对题，hehe，抱歉，开始没读清楚。

出现乱码是正常的，因为Protege在写文件或存数据库时采用的是“UTF-8”的编码方式

Important:
Edit the source file com.hp.hpl.jena.db.impl.Driver_Oracle.java.
Uncomment the Oracle import commands at the top of the file:
import oracle.jdbc.OracleResultSet;
import oracle.sql.BLOB;
Comment-out the stubbed-out interfaces named BLOB and OracleResultSet.
Load the JDBC driver. This enables the Jena program to communicate with the database instance.
Create a database connection. This creates a Java object for a database connection.
Create or open a model on the connection. This connects to the database and creates an empty model or opens a previously created model.
Steps 2-4 are illustrated in the following Java code.

// Load the Driver
String className = "oracle.jdbc.driver.DriverOracle" // path of driver class
Class.forName (className); // load driver
String DB_URL = "jdbc:oracle:oci:@"; // URL of database server
String DB_USER = "scott"; // database user id
String DB_PASSWD = "tiger"; // database password
String DB = "Oracle"; // database type
// Create database connection
IDBConnection conn = new DBConnection ( URL, DB_USER, DB_PASSWD, DB );
// Create a model in the database
ModelMaker maker = ModelFactory.createModelRDBMaker(conn);
ModelRDB m = (ModelRDB) maker.createModel ();
< your Jena code to work with the model goes here >
// Remove the model. NOTE: this deletes the model from the database.
// Subsequent attempts to open this model will fail.
m.remove();// NOTE: remove deletes the model from the database
// Close the database connection
conn.close();
// Alternative to creating an unnamed model ...
// Create a named model
ModelRDB m = maker.createModel("myName");
... later, or in another Jena application ...
// Open a named model.
ModelRDB m = maker.openModel("myName");

具体的操作步骤如下：
1、下载了mysql-connector-java-3.1.13.zip
2、解压缩过程中会报错，但是解压的文件夹中还是生成了mysql-connector-java-3.1.13-bin.jar
3、将mysql-connector-java-3.1.13-bin.jar复制到protege 3.1文件夹下，并改名成Driver.jar
4、重新启动protege.exe，并选中了test.pprj
5、在owl database的对话框中添加了相关配置
6、保存后报错：the jdbc class is not on the classpath