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BMCBI
2005
152views more  BMCBI 2005»
13 years 7 months ago
Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER
Background: Profile hidden Markov model (HMM) techniques are among the most powerful methods for protein homology detection. Yet, the critical features for successful modelling ar...
Markus Wistrand, Erik L. L. Sonnhammer
ICDE
2010
IEEE
240views Database» more  ICDE 2010»
14 years 2 days ago
Top-K aggregation queries over large networks
Searching and mining large graphs today is critical to a variety of application domains, ranging from personalized recommendation in social networks, to searches for functional ass...
Xifeng Yan, Bin He, Feida Zhu, Jiawei Han
BMCBI
2008
145views more  BMCBI 2008»
13 years 7 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...
BMCBI
2007
133views more  BMCBI 2007»
13 years 7 months ago
MATLIGN: a motif clustering, comparison and matching tool
Background: Sequence motifs representing transcription factor binding sites (TFBS) are commonly encoded as position frequency matrices (PFM) or degenerate consensus sequences (CS)...
Matti Kankainen, Ari Löytynoja
EDBT
2009
ACM
208views Database» more  EDBT 2009»
14 years 2 months ago
Flexible and efficient querying and ranking on hyperlinked data sources
There has been an explosion of hyperlinked data in many domains, e.g., the biological Web. Expressive query languages and effective ranking techniques are required to convert this...
Ramakrishna Varadarajan, Vagelis Hristidis, Louiqa...