Oxford Index Search Results

You are looking at 21-40 of 98 items for:

online x Evolutionary Biology x clear all

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...

Go to »  full text: open access   » abstract

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

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...

Go to »  full text: open access   » abstract

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...

Go to »  full text: open access   » abstract

DBM-DB: the diamondback moth genome database

Weiqi Tang, Liying Yu, Weiyi He, Guang Yang, Fushi Ke, Simon W. Baxter, Shijun You, Carl J. Douglas and Minsheng You.

in Database

P ublished online January 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2774 words.

The diamondback moth Genome Database (DBM-DB) is a central online repository for storing and integrating genomic data of diamondback moth (DBM), Plutella xylostella (L.). It provides...

Go to »  full text: open access   » abstract

MEMOSys 2.0: an update of the bioinformatics database for genome-scale models and genomic data

Stephan Pabinger, Rene Snajder, Timo Hardiman, Michaela Willi, Andreas Dander and Zlatko Trajanoski.

in Database

P ublished online February 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2644 words.

The MEtabolic MOdel research and development System (MEMOSys) is a versatile database for the management, storage and development of genome-scale models (GEMs). Since its initial release,...

Go to »  full text: open access   » abstract

Comparison of sequence variants in transcriptomic control regions across 17 mouse genomes

Cao Nguyen, Abdul Baten and Grant Morahan.

in Database

P ublished online March 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3514 words.

The laboratory mouse is the most widely used mammalian model organism in biomedical research, so a thorough annotation of functional variation in the mouse genome would be of significant...

Go to »  full text: open access   » abstract

DBatVir: the database of bat-associated viruses

Lihong Chen, Bo Liu, Jian Yang and Qi Jin.

in Database

P ublished online March 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3081 words.

Emerging infectious diseases remain a significant threat to public health. Most emerging infectious disease agents in humans are of zoonotic origin. Bats are important reservoir hosts of...

Go to »  full text: open access   » abstract

PhylOPDb: a 16S rRNA oligonucleotide probe database for prokaryotic identification

Faouzi Jaziri, Nicolas Parisot, Anis Abid, Jérémie Denonfoux, Céline Ribière, Cyrielle Gasc, Delphine Boucher, Jean-François Brugère, Antoine Mahul, David R.C. Hill, Eric Peyretaillade and Pierre Peyret.

in Database

P ublished online April 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 2954 words.

In recent years, high-throughput molecular tools have led to an exponential growth of available 16S rRNA gene sequences. Incorporating such data, molecular tools based on target-probe...

Go to »  full text: open access   » abstract

Automated semantic annotation of rare disease cases: a case study

Maria Taboada, Hadriana Rodríguez, Diego Martínez, María Pardo and María Jesús Sobrido.

in Database

P ublished online June 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 7386 words.

Motivation: As the number of clinical reports in the peer-reviewed medical literature keeps growing, there is an increasing need for online search tools to find and analyze...

Go to »  full text: open access   » abstract

aglgenes, a curated and searchable database of archaeal N-glycosylation pathway components

Noa Godin and Jerry Eichler.

in Database

P ublished online May 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 1404 words.

Whereas N-glycosylation is a posttranslational modification performed across evolution, the archaeal version of this protein-processing event presents a degree of diversity not seen in...

Go to »  full text: open access   » abstract

Curation accuracy of model organism databases

Ingrid M. Keseler, Marek Skrzypek, Deepika Weerasinghe, Albert Y. Chen, Carol Fulcher, Gene-Wei Li, Kimberly C. Lemmer, Katherine M. Mladinich, Edmond D. Chow, Gavin Sherlock and Peter D. Karp.

in Database

P ublished online June 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3816 words.

Manual extraction of information from the biomedical literature—or biocuration—is the central methodology used to construct many biological databases. For example, the UniProt protein...

Go to »  full text: open access   » abstract

Plant rDNA database: update and new features

Sònia Garcia, Francisco Gálvez, Airy Gras, Aleš Kovařík and Teresa Garnatje.

in Database

P ublished online June 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3352 words.

The Plant rDNA database (www.plantrdnadatabase.com) is an open access online resource providing detailed information on numbers, structures and positions of 5S and 18S-5.8S-26S (35S)...

Go to »  full text: open access   » abstract

miRBase Tracker: keeping track of microRNA annotation changes

Gert Van Peer, Steve Lefever, Jasper Anckaert, Anneleen Beckers, Ali Rihani, Alan Van Goethem, Pieter-Jan Volders, Fjoralba Zeka, Maté Ongenaert, Pieter Mestdagh and Jo Vandesompele.

in Database

P ublished online August 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3414 words.

Since 2002, information on individual microRNAs (miRNAs), such as reference names and sequences, has been stored in miRBase, the reference database for miRNA annotation. As a result of...

Go to »  full text: open access   » abstract

The Cancer Genomics Hub (CGHub): overcoming cancer through the power of torrential data

Christopher Wilks, Melissa S. Cline, Erich Weiler, Mark Diehkans, Brian Craft, Christy Martin, Daniel Murphy, Howdy Pierce, John Black, Donavan Nelson, Brian Litzinger, Thomas Hatton, Lori Maltbie, Michael Ainsworth, Patrick Allen, Linda Rosewood, Elizabeth Mitchell, Bradley Smith, Jim Warner, John Groboske, Haifang Telc, Daniel Wilson, Brian Sanford, Hannes Schmidt, David Haussler and Daniel Maltbie.

in Database

P ublished online September 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4637 words.

The Cancer Genomics Hub (CGHub) is the online repository of the sequencing programs of the National Cancer Institute (NCI), including The Cancer Genomics Atlas (TCGA), the Cancer Cell Line...

Go to »  full text: open access   » abstract

DEOP: a database on osmoprotectants and associated pathways

Salim Bougouffa, Aleksandar Radovanovic, Magbubah Essack and Vladimir B. Bajic.

in Database

P ublished online October 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 6425 words.

Microorganisms are known to counteract salt stress through salt influx or by the accumulation of osmoprotectants (also called compatible solutes). Understanding the pathways that synthesize...

Go to »  full text: open access   » abstract

A Web-based database of genetic association studies in cutaneous melanoma enhanced with network-driven data exploration tools

Emmanouil I. Athanasiadis, Kyriaki Antonopoulou, Foteini Chatzinasiou, Christina M. Lill, Marilena M. Bourdakou, Argiris Sakellariou, Katerina Kypreou, Irene Stefanaki, Evangelos Evangelou, John P.A. Ioannidis, Lars Bertram, Alexander J. Stratigos and George M. Spyrou.

in Database

P ublished online November 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4367 words.

The publicly available online database MelGene provides a comprehensive, regularly updated, collection of data from genetic association studies in cutaneous melanoma (CM), including...

Go to »  full text: open access   » abstract

BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes

Julien Rey, Patrick Deschavanne and Pierre Tuffery.

in Database

P ublished online November 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 5099 words.

With the recent progress in complete genome sequencing, mining the increasing amount of genomic information available should in theory provide the means to discover new classes of peptides....

Go to »  full text: open access   » abstract

Southern African Treatment Resistance Network (SATuRN) RegaDB HIV drug resistance and clinical management database: supporting patient management, surveillance and research in southern Africa

Justen Manasa, Richard Lessells, Theresa Rossouw, Kevindra Naidu, Cloete Van Vuuren, Dominique Goedhals, Gert van Zyl, Armand Bester, Andrew Skingsley, Katharine Stott, Siva Danaviah, Terusha Chetty, Lavanya Singh, Pravi Moodley, Collins Iwuji, Nuala McGrath, Christopher J. Seebregts and Tulio de Oliveira.

in Database

P ublished online February 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 3937 words.

Substantial amounts of data have been generated from patient management and academic exercises designed to better understand the human immunodeficiency virus (HIV) epidemic and design...

Go to »  full text: open access   » abstract

YTRP: a repository for yeast transcriptional regulatory pathways

Tzu-Hsien Yang, Chung-Ching Wang, Yu-Chao Wang and Wei-Sheng Wu.

in Database

P ublished online March 2014 .

Journal Article. Subjects: Bioinformatics and Computational Biology; Ecology and Conservation; Evolutionary Biology. 4689 words.

Regulatory targets of transcription factors (TFs) can be identified by the TF perturbation experiments, which reveal the expression changes owing to the perturbation (deletion or...

Go to »  full text: open access   » abstract