[The in silico elongation and analysis of the EST from Schistosoma japonicum].
OBJECTIVE
To construct a platform for in silico elongation and batch analysis of Schistosoma japonicum (Sj) ESTs, acquire the potential novel genes and research the expression profile of the genes.


METHODS
On the basis of Linux operating system and local ESTs database of Sj, the BLAST and PHRAP softwares were used to construct a program to achieve the elongation of ESTs. Stand-alone BLAST search against the nr database helped analyze the elongated sequence. After finishing the batch analysis script, the platform was used to research the Sj gene expression profile and acquire the potential novel genes.


RESULTS
The platform showed satisfactory efficiency and fidelity. 487 elongated sequences obtained from 552 and 307 elongated sequences showed high homology within the nr database downloaded from NCBI. Furthermore, 104 elongated sequences displayed significant homology but showed no homology before elongated. 27 potential novel genes were filtered out.


CONCLUSIONS
An effective platform for Sj ESTs data mining was accomplished and further information on the potential novel genes was acquired.
Liu
Han-teng
HT
Computer Centre, the School of Pre-Clinical Medicine, Sun Yat-Sen University, Guangzhou 510089, China.
Wu
Zhong-dao
ZD
Zou
Sai-de
SD
Shao
Xiao
X
D000818:Animals; D019295:Computational Biology; D018076:DNA, Complementary / Q000235:genetics; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling; D015723:Gene Library; D006801:Humans; D012549:Schistosoma japonicum / Q000235:genetics*
D018076:DNA, Complementary