Bioinformatics

The predictive power of the CluSTr database
pp. 3604-3609(6)
Authors: Petryszak, Robert; Kretschmann, Ernst; Wieser, Daniela; Apweiler, Rolf

MicroRNA identification based on sequence and structure alignment
pp. 3610-3614(5)
Authors: Wang, Xiaowo; Zhang, Jing; Gu, Jin; He, Tao; Zhang, Xuegong; Li, Yanda

SPEM: improving multiple sequence alignment with sequence profiles and predicted secondary structures
pp. 3615-3621(7)
Authors: Zhou, Hongyi; Zhou, Yaoqi

TileMap: create chromosomal map of tiling array hybridizations
pp. 3629-3636(8)
Authors: Ji, Hongkai; Wong, Wing Hung

A tractable probabilistic model for Affymetrix probe-level analysis across multiple chips
pp. 3637-3644(8)
Authors: Liu, Xuejun; Milo, Marta; Lawrence, Neil D.; Rattray, Magnus

Integration of metabolic networks and gene expression in virtual reality
pp. 3645-3650(6)
Authors: Yang, Yuting; Engin, Levent; Wurtele, Eve Syrkin; Cruz-Neira, Carolina; Dickerson, Julie A.

Study of coordinative gene expression at the biological process level
pp. 3651-3657(7)
Authors: Yu, Tianwei; Sun, Wei; Yuan, Shinsheng; Li, Ker-Chau

Resolving abbreviations to their senses in Medline
pp. 3658-3664(7)
Authors: Gaudan, S.; Kirsch, H.; Rebholz-Schuhmann, D.

WebACT—an online companion for the Artemis Comparison Tool
pp. 3665-3666(2)
Authors: Abbott, J. C.; Aanensen, D. M.; Rutherford, K.; Butcher, S.; Spratt, B. G.

BlastXtract—a new way of exploring translated searches
pp. 3667-3668(2)
Authors: Claesson, Marcus J.; van Sinderen, Douwe

GenColors: accelerated comparative analysis and annotation of prokaryotic genomes at various stages of completeness
pp. 3669-3671(3)
Authors: Romualdi, Alessandro; Siddiqui, Roman; Glöckner, Gernot; Lehmann, Rüdiger; Sühnel, Jürgen

HEGESMA: genome search meta-analysis and heterogeneity testing
pp. 3672-3673(2)
Authors: Zintzaras, Elias; Ioannidis, John P. A.

Friend, an integrated analytical front-end application for bioinformatics
pp. 3677-3678(2)
Authors: Abyzov, Alexej; Errami, Mounir; Leslin, Chesley M.; Ilyin, Valentin A.

GeneCruiser: a web service for the annotation of microarray data
pp. 3681-3682(2)
Authors: Liefeld, Ted; Reich, Michael; Gould, Joshua; Zhang, Peili; Tamayo, Pablo; Mesirov, Jill P.

Simpleaffy: a BioConductor package for Affymetrix Quality Control and data analysis
pp. 3683-3685(3)
Authors: Wilson, Claire L.; Miller, Crispin J.

simuPOP: a forward-time population genetics simulation environment
pp. 3686-3687(2)
Authors: Peng, Bo; Kimmel, Marek

Bifurcation discovery tool
pp. 3688-3690(3)
Authors: Chickarmane, Vijay; Paladugu, Sri R.; Bergmann, Frank; Sauro, Herbert M.

DEPD: a novel database for differentially expressed proteins
pp. 3694-3696(3)
Authors: He, Quan-Yuan; Cao, Jing; Liu, Xiang-Hua; Li, Miao-Xin; Liu, Yi-Song; Xie, Jin-Yun; Liang, Song-Ping

SpA: web-accessible spectratype analysis: data management, statistical analysis and visualization
pp. 3697-3699(3)
Authors: He, Min; Tomfohr, John K.; Devlin, Blythe H.; Sarzotti, Marcella; Markert, M. Louise; Kepler, Thomas B.