Oxford Index Search Results

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online

Overview page. Subjects: Computing.

When a computer or a user is directly connected into a network and is capable of interacting with it, for example by querying the contents of a database.

See overview in Oxford Index

Tripal: a construction toolkit for online genome databases

Stephen P. Ficklin, Lacey-Anne Sanderson, Chun-Huai Cheng, Margaret E. Staton, Taein Lee, Il-Hyung Cho, Sook Jung, Kirstin E. Bett and Doreen Main.

in Database

P ublished online September 2011 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 7332 words.

As the availability, affordability and magnitude of genomics and genetics research increases so does the need to provide online access to resulting data and analyses. Availability of a...

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Outreach and online training services at the Saccharomyces Genome Database

Kevin A. MacPherson, Barry Starr, Edith D. Wong, Kyla S. Dalusag, Sage T. Hellerstedt, Olivia W. Lang, Robert S. Nash, Marek S. Skrzypek, Stacia R. Engel and J. Michael Cherry.

in Database

P ublished online February 2017 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3415 words.

Abstract

The Saccharomyces Genome Database (SGD; www.yeastgenome.org), the primary genetics and genomics resource for the budding yeast S. cerevisiae, provides...

GermOnline 4.0 is a genomics gateway for germline development, meiosis and the mitotic cell cycle

Aurélie Lardenois, Alexandre Gattiker, Olivier Collin, Frédéric Chalmel and Michael Primig.

in Database

P ublished online December 2010 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4300 words.

GermOnline 4.0 is a cross-species database portal focusing on high-throughput expression data relevant for germline development, the meiotic cell cycle and mitosis in healthy versus...

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MiDAS 2.0: an ecosystem-specific taxonomy and online database for the organisms of wastewater treatment systems expanded for anaerobic digester groups

Simon Jon McIlroy, Rasmus Hansen Kirkegaard, Bianca McIlroy, Marta Nierychlo, Jannie Munk Kristensen, Søren Michael Karst, Mads Albertsen and Per Halkjær Nielsen.

in Database

P ublished online March 2017 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2884 words.

Abstract

Wastewater is increasingly viewed as a resource, with anaerobic digester technology being routinely implemented for biogas production. Characterising...

On-line Working and Open Access Publishing

Mike Jackson.

in Annals of Botany

January 2005; p ublished online January 2005 .

Journal Article. Subjects: Ecology and Conservation; Evolutionary Biology; Plant Sciences and Forestry. 1156 words.

Fast online publication of Annals of Botany articles using IDEAL First

in Annals of Botany

February 2001; p ublished online February 2001 .

Journal Article. Subjects: Ecology and Conservation; Evolutionary Biology; Plant Sciences and Forestry. 0 words.

Phenol-Explorer: an online comprehensive database on polyphenol contents in foods

V. Neveu, J. Perez-Jiménez, F. Vos, V. Crespy, L. du Chaffaut, L. Mennen, C. Knox, R. Eisner, J. Cruz, D. Wishart and A. Scalbert.

in Database

January 2010; p ublished online January 2010 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3448 words.

A number of databases on the plant metabolome describe the chemistry and biosynthesis of plant chemicals. However, no such database is specifically focused on foods and more precisely on...

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Dr. Zompo: an online data repository for Zostera marina and Posidonia oceanica ESTs

L. Wissler, E. Dattolo, A. D. Moore, T. B. H. Reusch, J. L. Olsen, M. Migliaccio, E. Bornberg-Bauer and G. Procaccini.

in Database

January 2009; p ublished online August 2009 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4613 words.

As ecosystem engineers, seagrasses are angiosperms of paramount ecological importance in shallow shoreline habitats around the globe. Furthermore, the ancestors of independent seagrass...

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A curated online resource for SOX10 and pigment cell molecular genetic pathways

Laura L. Baxter, R. Travis Moreland, Anh-Dao Nguyen, Tyra G. Wolfsberg and William J. Pavan.

in Database

P ublished online October 2010 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3024 words.

We describe the creation of a specialized web-accessible database named the Pigment Cell Gene Resource, which contains information on the genetic pathways that regulate pigment cell...

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The Grass Carp Genome Database (GCGD): an online platform for genome features and annotations

Yaxin Chen, Mijuan Shi, Wanting Zhang, Yingyin Cheng, Yaping Wang and Xiao-Qin Xia.

in Database

P ublished online July 2017 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3676 words.

Abstract

As one of the four major Chinese carps of important economic value, the grass carp (Ctenopharyngodon idellus) has attracted increasing attention from...

Boechera microsatellite website: an online portal for species identification and determination of hybrid parentage

Fay-Wei Li, Catherine A. Rushworth, James B. Beck and Michael D. Windham.

in Database

P ublished online February 2017 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 6074 words.

Abstract

Boechera (Brassicaceae) has many features to recommend it as a model genus for ecological and evolutionary research, including species...

Evolutionary Biology

Edited by Jonathan B. Losos.

P ublished online January 2014 .

Research Guide. Subjects: Evolutionary Biology.

Made up of a rapidly expanding range of articles written by distinguished international scholars, this dynamic, continuously updated online resource offers exclusive authoritative research...

Yahoo!XFinance

Mike Fortun.

in Promising Genomics

February 2008; p ublished online March 2012 .

Chapter. Subjects: Evolutionary Biology. 5285 words.

After deCODE Genetics placed its initial public offering (IPO), announced in March 2000, on hold as NASDAQ tumbled through the spring, its underwriters, Morgan Stanley, decided to go ahead....

Go to University of California Press »  abstract

A Surrogate Function for One-Dimensional Phylogenetic Likelihoods

Brian C Claywell, Vu Dinh, Mathieu Fourment, Connor O McCoy and Frederick A Matsen IV.

in Molecular Biology and Evolution

January 2018; p ublished online September 2017 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 2235 words.

Abstract

Phylogenetics has seen a steady increase in data set size and substitution model complexity, which require increasing amounts of computational power...

Developmental Stage and Level of Codon Usage Bias in Drosophila

Saverio Vicario, Christopher E. Mason, Kevin P. White and Jeffrey R. Powell.

in Molecular Biology and Evolution

November 2008; p ublished online August 2008 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 5654 words.

Codon usage bias (CUB) is a ubiquitous observation in molecular evolution. As a model, Drosophila has been particularly well-studied and indications show that selection at least partially...

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A Likelihood Framework to Measure Horizontal Gene Transfer

Simone Linz, Achim Radtke and Arndt von Haeseler.

in Molecular Biology and Evolution

June 2007; p ublished online March 2007 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 5573 words.

We suggest a likelihood-based approach to estimate an overall rate of horizontal gene transfer (HGT) in a simplified setting. To this end, we assume that the number of occurring HGT events...

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IQPNNI: Moving Fast Through Tree Space and Stopping in Time

Le Sy Vinh and Arndt von Haeseler.

in Molecular Biology and Evolution

August 2004; p ublished online August 2004 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 5481 words.

An efficient tree reconstruction method (IQPNNI) is introduced to reconstruct a phylogenetic tree based on DNA or amino acid sequence data. Our approach combines various fast algorithms to...

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Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

Jaime Huerta-Cepas, Kristoffer Forslund, Luis Pedro Coelho, Damian Szklarczyk, Lars Juhl Jensen, Christian von Mering and Peer Bork.

in Molecular Biology and Evolution

August 2017; p ublished online April 2017 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 4480 words.

Abstract

Orthology assignment is ideally suited for functional inference. However, because predicting orthology is computationally intensive at large scale,...

Analysis of Nuclear Receptor Pseudogenes in Vertebrates: How the Silent Tell Their Stories

Zhengdong D. Zhang, Philip Cayting, George Weinstock and Mark Gerstein.

in Molecular Biology and Evolution

January 2008; p ublished online December 2007 .

Journal Article. Subjects: Evolutionary Biology; Molecular and Cell Biology. 6238 words.

Transcription factor pseudogenes have not been systematically studied before. Nuclear receptors (NRs) constitute one of the largest groups of transcription factors in animals (e.g., 48 NRs...

Go to »  abstract

DFVF: database of fungal virulence factors

Tao Lu, Bo Yao and Chi Zhang.

in Database

P ublished online October 2012 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 1542 words.

Fungal pathogens cause various diseases for plant and animal hosts. Despite the extensive impact of fungi on human health and life, the threats posed by emerging fungal pathogens are poorly...

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