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» The PIR-International Protein Sequence Database
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CSB
2004
IEEE
110views Bioinformatics» more  CSB 2004»
15 years 3 months ago
SPIDER: Software for Protein Identification from Sequence Tags with De Novo Sequencing Error
For the identification of novel proteins using MS/MS, de novo sequencing software computes one or several possible amino acid sequences (called sequence tags) for each MS/MS spect...
Yonghua Han, Bin Ma, Kaizhong Zhang
PKDD
2005
Springer
105views Data Mining» more  PKDD 2005»
15 years 5 months ago
Protein Sequence Pattern Mining with Constraints
Considering the characteristics of biological sequence databases, which typically have a small alphabet, a very long length and a relative small size (several hundreds of sequences...
Pedro Gabriel Ferreira, Paulo J. Azevedo
BMCBI
2008
149views more  BMCBI 2008»
14 years 12 months ago
Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence
Background: Modern proteomes evolved by modification of pre-existing ones. It is extremely important to comparative biology that related proteins be identified as members of the s...
Adriano Barbosa-Silva, Venkata P. Satagopam, Reinh...
BMCBI
2006
169views more  BMCBI 2006»
14 years 11 months ago
Assessing protein similarity with Gene Ontology and its use in subnuclear localization prediction
Background: The accomplishment of the various genome sequencing projects resulted in accumulation of massive amount of gene sequence information. This calls for a large-scale comp...
Zhengdeng Lei, Yang Dai
BMCBI
2006
108views more  BMCBI 2006»
14 years 11 months ago
RibAlign: a software tool and database for eubacterial phylogeny based on concatenated ribosomal protein subunits
Background: Until today, analysis of 16S ribosomal RNA (rRNA) sequences has been the de-facto gold standard for the assessment of phylogenetic relationships among prokaryotes. How...
Hanno Teeling, Frank Oliver Glöckner