SSW library: an SIMD Smith-Waterman C/C++ library for use in genomic applications. [PDF]
PLoS ONE, 2013 The Smith-Waterman algorithm, which produces the optimal pairwise alignment between two sequences, is frequently used as a key component of fast heuristic read mapping and variation detection tools for next-generation sequencing data. Though various fast
Mengyao Zhao +3 more
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Characterization of Sigma Factor Genes in Streptomyces lividans TK24 Using a Genomic Library-Based Approach for Multiple Gene Deletions [PDF]
Frontiers in Microbiology, 2018 Alternative sigma factors control numerous aspects of bacterial life, including adaptation to physiological stresses, morphological development, persistence states and virulence.
Yuriy Rebets +23 more
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Libraries for genomic SELEX [PDF]
Nucleic Acids Research, 1997 An increasing number of proteins are being identified that regulate gene expression by binding specific nucleic acidsin vivo. A method termed genomic SELEX facilitates the rapid identification of networks of protein-nucleic acid interactions by identifying within the genomic sequences of an organism the highest affinity sites for any protein of the ...
Britta Swebilius Singer +3 more
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Construction of a Cosmid-Based Ultraefficient Genomic Library System for Filamentous Fungi of the Genus Aspergillus [PDF]
Journal of FungiFilamentous fungi of the genus Aspergillus include producers of industrially important organic acids, enzymes, and secondary metabolites, as well as pathogens of many plants and animals.
Chihiro Kadooka, Takuji Oka
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Preparation of Genomic Overexpression Library [PDF]
Bio-Protocol, 2012 This protocol is used to identify/select for Escherichia coli genes that, when overexpressed in Vibrio cholerae Hsp33 (hslO gene) deletion mutant, protect against oxidative heat stress and, by extension, against HOCl-mediated protein damage.
Wei-Yun Wholey
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Library on a slide for bacterial comparative genomics. [PDF]
BMC Microbiology, 2004 We describe a novel application of microarray technology for comparative genomics of bacteria in which libraries of entire genomes rather than the sequence of a single genome or sets of genes are arrayed on the slide and then probed for the presence or absence of specific genes and/or gene alleles.We first adopted a 96-well high throughput working ...
Lixin Zhang +5 more
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Deployment of a Vibrio cholerae ordered transposon mutant library in a quorum-competent genetic background [PDF]
mBioVibrio cholerae, the causative agent of cholera, has sparked seven pandemics in recent centuries, with the current one being the most prolonged. V. cholerae’s pathogenesis hinges on its ability to switch between low- and high-cell-density gene regulatory
Nkrumah A. Grant +4 more
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Construction and Application of a Baculovirus Genomic Library [PDF]
Zeitschrift für Naturforschung C, 2009 A random genomic library of the baculovirus Bombyx mori nucleopolyhedrovirus (BmNPV) was constructed and viral factors were identified by screening the regulator(s) for helicase gene expression. DNAs of 238 library plasmids were used to co-transfect with the reporter plasmid, pHp510-luc, in which the luciferase (luc) gene was driven by the baculovirus ...
Yin Chen +4 more
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Using partial genomic fosmid libraries for sequencing complete organellar genomes [PDF]
BioTechniques, 2006 Organellar genome sequences provide numerous phylogenetic markers and yield insight into organellar function and molecular evolution. These genomes are much smaller in size than their nuclear counterparts; thus, their complete sequencing is much less expensive than total nuclear genome sequencing, making broader phylogenetic sampling feasible. However;
Joel R. McNeal +5 more
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A highly redundant BAC library of Atlantic salmon (
BMC Genomics, 2005 Background As farming of Atlantic salmon is growing as an aquaculture enterprise, the need to identify the genomic mechanisms for specific traits is becoming more important in breeding and management of the animal.
Koop Ben F +7 more
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