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BMCBI
2004
150views more  BMCBI 2004»
8 years 12 months ago
Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila
Background: The discovery of cis-regulatory modules in metazoan genomes is crucial for understanding the connection between genes and organism diversity. It is important to quanti...
Saurabh Sinha, Mark D. Schroeder, Ulrich Unnerstal...
BMCBI
2004
88views more  BMCBI 2004»
8 years 12 months ago
PhyME: A probabilistic algorithm for finding motifs in sets of orthologous sequences
Background: This paper addresses the problem of discovering transcription factor binding sites in heterogeneous sequence data, which includes regulatory sequences of one or more g...
Saurabh Sinha, Mathieu Blanchette, Martin Tompa
BMCBI
2004
69views more  BMCBI 2004»
8 years 12 months ago
ArrayD: A general purpose software for Microarray design
Anu Sharma, Gyan Prakash Srivastava, Vineet K. Sha...
BMCBI
2004
62views more  BMCBI 2004»
8 years 12 months ago
Pegasys: software for executing and integrating analyses of biological sequences
Background: We present Pegasys
Sohrab P. Shah, David Y. M. He, Jessica N. Sawkins...
BMCBI
2004
93views more  BMCBI 2004»
8 years 12 months ago
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods
Background: Protein-protein interactions play a critical role in protein function. Completion of many genomes is being followed rapidly by major efforts to identify interacting pr...
Taner Z. Sen, Andrzej Kloczkowski, Robert L. Jerni...
BMCBI
2004
173views more  BMCBI 2004»
8 years 12 months ago
d-matrix - database exploration, visualization and analysis
Background: Motivated by a biomedical database set up by our group, we aimed to develop a generic database front-end with embedded knowledge discovery and analysis features. A maj...
Dominik Seelow, Raffaello Galli, Siegrun Mebus, Ha...
BMCBI
2004
114views more  BMCBI 2004»
8 years 12 months ago
HMM Logos for visualization of protein families
Background: Profile Hidden Markov Models (pHMMs) are a widely used tool for protein family research. Up to now, however, there exists no method to visualize all of their central a...
Benjamin Schuster-Böckler, Jörg Schultz,...
BMCBI
2004
156views more  BMCBI 2004»
8 years 12 months ago
DIALIGN P: Fast pair-wise and multiple sequence alignment using parallel processors
Background: Parallel computing is frequently used to speed up computationally expensive tasks in Bioinformatics. Results: Herein, a parallel version of the multi-alignment program...
Martin Schmollinger, Kay Nieselt, Michael Kaufmann...
BMCBI
2004
112views more  BMCBI 2004»
8 years 12 months ago
SPOC: A widely distributed domain associated with cancer, apoptosis and transcription
Background: The Split ends (Spen) family are large proteins characterised by N-terminal RNA recognition motifs (RRMs) and a conserved SPOC (Spen paralog and ortholog C-terminal) d...
Luis Sánchez-Pulido, Ana María Rojas...
BMCBI
2004
119views more  BMCBI 2004»
8 years 12 months ago
Genome SEGE: A database for 'intronless' genes in eukaryotic genomes
Background: A number of completely sequenced eukaryotic genome data are available in the public domain. Eukaryotic genes are either 'intron containing' or 'intronle...
Meena K. Sakharkar, Pandjassarame Kangueane
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