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CIKM
2009
Springer
15 years 10 months ago
Suffix trees for very large genomic sequences
A suffix tree is a fundamental data structure for string searching algorithms. Unfortunately, when it comes to the use of suffix trees in real-life applications, the current metho...
Marina Barsky, Ulrike Stege, Alex Thomo, Chris Upt...
BIBM
2008
IEEE
125views Bioinformatics» more  BIBM 2008»
15 years 8 months ago
On the Role of Local Matching for Efficient Semi-supervised Protein Sequence Classification
Recent studies in protein sequence analysis have leveraged the power of unlabeled data. For example, the profile and mismatch neighborhood kernels have shown significant improveme...
Pavel P. Kuksa, Pai-Hsi Huang, Vladimir Pavlovic
BIOINFORMATICS
2010
94views more  BIOINFORMATICS 2010»
15 years 6 months ago
Globally, unrelated protein sequences appear random
Motivation: To test whether protein folding constraints and secondary structure sequence preferences significantly reduce the space of amino acid words in proteins, we compared th...
Daniel T. Lavelle, William R. Pearson
EOR
2008
72views more  EOR 2008»
15 years 6 months ago
The car sequencing problem: Overview of state-of-the-art methods and industrial case-study of the ROADEF'2005 challenge problem
The ROADEF challenge is organized every two years by the French Society of Operations Research and Decision-Making Aid. The goal is to allow industrial partners to witness recent ...
Christine Solnon, Van Dat Cung, Alain Nguyen, Chri...
JIIS
2008
89views more  JIIS 2008»
15 years 6 months ago
A note on phase transitions and computational pitfalls of learning from sequences
An ever greater range of applications call for learning from sequences. Grammar induction is one prominent tool for sequence learning, it is therefore important to know its proper...
Antoine Cornuéjols, Michèle Sebag