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

PolyprOnline: polyproline helix II and secondary structure assignment database

Romain Chebrek, Sylvain Leonard, Alexandre G. de Brevern and Jean-Christophe Gelly.

in Database

P ublished online November 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3163 words.

The polyproline helix type II (PPII) is a regular protein secondary structure with remarkable features. Many studies have highlighted different crucial biological roles supported by this...

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FusoBase: an online Fusobacterium comparative genomic analysis platform

Mia Yang Ang, Hamed Heydari, Nick S. Jakubovics, Mahafizul Imran Mahmud, Avirup Dutta, Wei Yee Wee, Guat Jah Wong, Naresh V.R. Mutha, Shi Yang Tan and Siew Woh Choo.

in Database

P ublished online August 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 5892 words.

Fusobacterium are anaerobic gram-negative bacteria that have been associated with a wide spectrum of human infections and diseases. As the biology of Fusobacterium is still not...

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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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RTeQTL: Real-Time Online Engine for Expression Quantitative Trait Loci Analyses

Baoshan Ma, Jinyan Huang and Liming Liang.

in Database

P ublished online July 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2648 words.

Our database tool, called Real-Time Engine for Expression Quantitative Trait Loci Analyses (RTeQTL), can efficiently provide eQTL association results that are not available in existing eQTL...

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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...

RLIMS-P: an online text-mining tool for literature-based extraction of protein phosphorylation information

Manabu Torii, Gang Li, Zhiwen Li, Rose Oughtred, Francesca Diella, Irem Çelen, Cecilia N. Arighi, Hongzhan Huang, K. Vijay-Shanker and Cathy H. Wu.

in Database

P ublished online August 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 5640 words.

Protein phosphorylation is central to the regulation of most aspects of cell function. Given its importance, it has been the subject of active research as well as the focus of curation in...

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An online system for metabolic network analysis

Abdullah Ercument Cicek, Xinjian Qi, Ali Cakmak, Stephen R. Johnson, Xu Han, Sami Alshalwi, Zehra Meral Ozsoyoglu and Gultekin Ozsoyoglu.

in Database

P ublished online September 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 7652 words.

Metabolic networks have become one of the centers of attention in life sciences research with the advancements in the metabolomics field. A vast array of studies analyzes metabolites and...

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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...

The Virtual Xenbase: transitioning an online bioinformatics resource to a private cloud

Kamran Karimi and Peter D. Vize.

in Database

P ublished online November 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2825 words.

As a model organism database, Xenbase has been providing informatics and genomic data on Xenopus (Silurana) tropicalis and Xenopus laevis frogs for more than a decade. The Xenbase database...

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HGV&TB: a comprehensive online resource on human genes and genetic variants associated with tuberculosis

Ruchika Sahajpal, Gaurav Kandoi, Heena Dhiman, Sweety Raj, Vinod Scaria, Deeksha Bhartiya and Yasha Hasija.

in Database

P ublished online December 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4795 words.

Tuberculosis (TB) is an infectious disease caused by fastidious pathogen Mycobacterium tuberculosis. TB has emerged as one of the major causes of mortality in the developing world. Role of...

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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...

DevMouse, the mouse developmental methylome database and analysis tools

Hongbo Liu, Rangfei Zhu, Jie Lv, Hongjuan He, Lin Yang, Zhijun Huang, Jianzhong Su, Yan Zhang, Shihuan Yu and Qiong Wu.

in Database

P ublished online January 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3054 words.

DNA methylation undergoes dynamic changes during mouse development and plays crucial roles in embryogenesis, cell-lineage determination and genomic imprinting. Bisulfite sequencing enables...

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yStreX: yeast stress expression database

Kwanjeera Wanichthanarak, Intawat Nookaew and Dina Petranovic.

in Database

P ublished online July 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3935 words.

Over the past decade genome-wide expression analyses have been often used to study how expression of genes changes in response to various environmental stresses. Many of these studies (such...

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BioC interoperability track overview

Donald C. Comeau, Riza Theresa Batista-Navarro, Hong-Jie Dai, Rezarta Islamaj Doğan, Antonio Jimeno Yepes, Ritu Khare, Zhiyong Lu, Hernani Marques, Carolyn J. Mattingly, Mariana Neves, Yifan Peng, Rafal Rak, Fabio Rinaldi, Richard Tzong-Han Tsai, Karin Verspoor, Thomas C. Wiegers, Cathy H. Wu and W. John Wilbur.

in Database

P ublished online June 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 7950 words.

BioC is a new simple XML format for sharing biomedical text and annotations and libraries to read and write that format. This promotes the development of interoperable tools for natural...

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Rule-based deduplication of article records from bibliographic databases

Yu Jiang, Can Lin, Weiyi Meng, Clement Yu, Aaron M. Cohen and Neil R. Smalheiser.

in Database

P ublished online January 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3364 words.

We recently designed and deployed a metasearch engine, Metta, that sends queries and retrieves search results from five leading biomedical databases: PubMed, EMBASE, CINAHL, PsycINFO and...

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