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» Fast Dictionary Lookup in Genomic Information Retrieval
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BMCBI
2002
137views more  BMCBI 2002»
13 years 7 months ago
ORFer - retrieval of protein sequences and open reading frames from GenBank and storage into relational databases or text files
Background: Functional genomics involves the parallel experimentation with large sets of proteins. This requires management of large sets of open reading frames as a prerequisite ...
Konrad Büssow, Steve Hoffmann, Volker Sievert
BMCBI
2004
136views more  BMCBI 2004»
13 years 7 months ago
A SNP-centric database for the investigation of the human genome
Background: Single Nucleotide Polymorphisms (SNPs) are an increasingly important tool for genetic and biomedical research. Although current genomic databases contain information o...
Alberto Riva, Isaac S. Kohane
BMCBI
2011
12 years 11 months ago
ENGINES: exploring single nucleotide variation in entire human genomes
Background: Next generation ultra-sequencing technologies are starting to produce extensive quantities of data from entire human genome or exome sequences, and therefore new softw...
Jorge Amigo, Antonio Salas, Christopher Phillips
ACSC
2009
IEEE
14 years 2 months ago
Fast and Compact Hash Tables for Integer Keys
A hash table is a fundamental data structure in computer science that can offer rapid storage and retrieval of data. A leading implementation for string keys is the cacheconscious...
Nikolas Askitis
BMCBI
2010
155views more  BMCBI 2010»
13 years 7 months ago
BISMA - Fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences
Background: Bisulfite sequencing is a popular method to analyze DNA methylation patterns at high resolution. A region of interest is targeted by PCR and about 20-50 subcloned DNA ...
Christian Rohde, Yingying Zhang, Richard Reinhardt...