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SIGMOD
2011
ACM
150views Database» more  SIGMOD 2011»
14 years 2 months ago
WHAM: a high-throughput sequence alignment method
Over the last decade the cost of producing genomic sequences has dropped dramatically due to the current so called “next-gen” sequencing methods. However, these next-gen seque...
Yinan Li, Allison Terrell, Jignesh M. Patel
113
Voted
ICDE
2010
IEEE
288views Database» more  ICDE 2010»
15 years 11 months ago
Fast In-Memory XPath Search using Compressed Indexes
A large fraction of an XML document typically consists of text data. The XPath query language allows text search via the equal, contains, and starts-with predicates. Such predicate...
Diego Arroyuelo, Francisco Claude, Sebastian Manet...
BMCBI
2005
130views more  BMCBI 2005»
14 years 11 months ago
Squid - a simple bioinformatics grid
Background: BLAST is a widely used genetic research tool for analysis of similarity between nucleotide and protein sequences. This paper presents a software application entitled &...
Paulo C. Carvalho, Rafael V. Glória, Antoni...
BMCBI
2011
14 years 3 months ago
PI: An open-source software package for validation of the SEQUEST result and visualization of mass spectrum
Background: Tandem mass spectrometry (MS/MS) has emerged as the leading method for high- throughput protein identification in proteomics. Recent technological breakthroughs have d...
Yantao Qiao, Hong Zhang, Dongbo Bu, Shiwei Sun
BMCBI
2010
152views more  BMCBI 2010»
14 years 12 months ago
A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry
Background: High-resolution tandem mass spectra can now be readily acquired with hybrid instruments, such as LTQ-Orbitrap and LTQ-FT, in high-throughput shotgun proteomics workflo...
Chongle Pan, Byung-Hoon Park, William H. McDonald,...