Results 61 to 70 of about 5,730,601 (379)

Reagent and laboratory contamination can critically impact sequence-based microbiome analyses

BMC Biology, 2014
BackgroundThe study of microbial communities has been revolutionised in recent years by the widespread adoption of culture independent analytical techniques such as 16S rRNA gene sequencing and metagenomics.
S. Salter, M. Cox, E. Turek, S. Calus, W. Cookson, M. Moffatt, P. Turner, J. Parkhill, N. Loman, A. Walker   +9 more
semanticscholar   +1 more source

Identification of Known and Novel Recurrent Viral Sequences in Data from Multiple Patients and Multiple Cancers

Viruses, 2016
Virus discovery from high throughput sequencing data often follows a bottom-up approach where taxonomic annotation takes place prior to association to disease.
Jens Friis-Nielsen, Kristín Rós Kjartansdóttir, Sarah Mollerup, Maria Asplund, Tobias Mourier, Randi Holm Jensen, Thomas Arn Hansen, Alba Rey-Iglesia, Stine Raith Richter, Ida Broman Nielsen, David E. Alquezar-Planas, Pernille V. S. Olsen, Lasse Vinner, Helena Fridholm, Lars Peter Nielsen, Eske Willerslev, Thomas Sicheritz-Pontén, Ole Lund, Anders Johannes Hansen, Jose M. G. Izarzugaza, Søren Brunak   +20 more
doaj   +1 more source

FluKB: A Knowledge-Based System for Influenza Vaccine Target Discovery and Analysis of the Immunological Properties of Influenza Viruses

Journal of Immunology Research, 2015
FluKB is a knowledge-based system focusing on data and analytical tools for influenza vaccine discovery. The main goal of FluKB is to provide access to curated influenza sequence and epitope data and enhance the analysis of influenza sequence diversity ...
Christian Simon, Ulrich J. Kudahl, Jing Sun, Lars Rønn Olsen, Guang Lan Zhang, Ellis L. Reinherz, Vladimir Brusic   +6 more
doaj   +1 more source

Functional Synthetic Biology [PDF]

arXiv, 2022
Synthetic biologists have made great progress over the past decade in developing methods for modular assembly of genetic sequences and in engineering biological systems with a wide variety of functions in various contexts and organisms. However, current paradigms in the field entangle sequence and functionality in a manner that makes abstraction ...
arxiv  

Full genome sequence and sfRNA interferon antagonist activity of Zika virus from Recife, Brazil [PDF]

, 2016
Background: The outbreak of Zika virus (ZIKV) in the Americas has transformed a previously obscure mosquito-transmitted arbovirus of the Flaviviridae family into a major public health concern.
Biek, Roman, Brennan, Benjamin, Clark, Jordan J., Cordeiro, Marli T., Cumberworth, Stephanie L., Da Silva Filipe, Ana, Davis, Christopher, Donald, Claire L., Fall, Gamou, Freitas de Oliveira França, Rafael, Hughes, Joseph, Kohl, Alain, Lindenbach, Brett D., McLauchlan, John, Owsianka, Anna M., Patel, Arvind H., Pena, Lindomar J., Rehwinkel, Jan, Rezelj, Veronica V., Sall, Amadou A., Schnettler, Esther, Selinger, Martin, Varjak, Margus, Wilkie, Gavin S., Zuvanov, Luíza   +24 more
core   +3 more sources

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.

Journal of Molecular Biology, 1999
An improved dynamic programming algorithm is reported for RNA secondary structure prediction by free energy minimization. Thermodynamic parameters for the stabilities of secondary structure motifs are revised to include expanded sequence dependence as ...
D. Mathews, Jeffrey Sabina, M. Zuker, D. Turner   +3 more
semanticscholar   +1 more source

Natural variability of Kozak sequences correlates with function in a zebrafish model. [PDF]

PLoS ONE, 2014
In eukaryotes, targeting the small ribosomal subunit to the mRNA transcript requires a Kozak sequence at the translation initiation site. Despite the critical importance of the Kozak sequence to regulation of gene expression, there have been no ...
Steven J Grzegorski, Estelle F Chiari, Amy Robbins, Phillip E Kish, Alon Kahana   +4 more
doaj   +1 more source

Biopython: freely available Python tools for computational molecular biology and bioinformatics

Bioinform., 2009
Summary: The Biopython project is a mature open source international collaboration of volunteer developers, providing Python libraries for a wide range of bioinformatics problems. Biopython includes modules for reading and writing different sequence file
P. Cock, T. Antão, Jeffrey T. Chang, Brad A. Chapman, C. Cox, A. Dalke, Iddo Friedberg, T. Hamelryck, F. Kauff, B. Wilczyński, Michiel J. L. de Hoon   +10 more
semanticscholar   +1 more source

Detailed kinship estimation for detecting bias among breeding families in a reintroduced population of the endangered bagrid catfish Tachysurus ichikawai

Population Ecology, EarlyView.
In the process of captive breeding and reintroduction of endangered animal species, it is crucial to minimize familial bias in reproductive success during the reintroduction phase to preserve genetic diversity. In this study, we attempted to identify the familial lineage of individuals of the endangered bagrid fish Tachysurus ichikawai born at the ...
Hinano Mizuno, Kouji Nakayama, Tetsuya Akita, Yasuyuki Hashiguchi, Tomonori Osugi, Hirohiko Takeshima   +5 more
wiley   +1 more source

Building Block and Building Rule: Dual Descriptor Method for Biological Sequence Analysis [PDF]

, 2008
The emergence of “Systems Biology” in recent years highlights the systematic viewpoint of bio-system modeling. Building on such a background, Dual Descriptor Method, a generic methodology for biological sequence analysis is proposed. From a
Bin-Guang Ma
core   +1 more source