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venriquez's dataone_web_resources [40 articles]

 
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✔ TBMap: a taxonomic perspective on the phylogenetic database TreeBASE.

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BMC bioinformatics, Vol. 8, No. 1. (18 May 2007), 158, doi:10.1186/1471-2105-8-158
by Roderic D. Page
posted to articles dataone_web_resources treebase by venriquez ✚ on 2010-06-14 21:21:31 read along with 5 people and 3 groups anphony grantbrammer lmichan orovellotti rvosa Biiiogeek Eco informatics FAB-lab
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Abstract

TreeBASE is currently the only available large-scale database of published organismal phylogenies. Its utility is hampered by a lack of taxonomic consistency, both within the database, and with names of organisms in external genomic, specimen, and taxonomic databases. The extent to which the phylogenetic knowledge in TreeBASE becomes integrated with these other sources is limited by this lack of consistency. ...
 

✔ Cryptic Failure of Partitioned Bayesian Phylogenetic Analyses: Lost in the Land of Long Trees

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Systematic Biology, Vol. 59, No. 1. (01 January 2010), pp. 108-117, doi:10.1093/sysbio/syp080
by David C. Marshall
posted to articles dataone_web_resources treebase by venriquez ✚ on 2010-06-14 18:41:57 ** along with 4 people and 1 group coleoguy fheim rossmounce stajich Mycology
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Partitioned Bayesian phylogenetic analyses of routine genetic data sets, constructed using MrBayes (Ronquist and Huelsenbeck 2003), can become trapped in regions of parameter space characterized by unrealistically long trees and distorted partition rate multipliers. Such analyses commonly fail to reach stationarity during hundreds of millions of generations of sampling—many times longer than most published analyses. Some data sets are so prone to this problem that paired MrBayes runs begun from different starting trees repeatedly find the same incorrect long-tree solutions and ...
 

✔ Does Choice in Model Selection Affect Maximum Likelihood Analysis?

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Syst Biol, Vol. 57, No. 1. (1 February 2008), pp. 76-85, doi:10.1080/10635150801898920
by Jennifer Ripplinger, Jack Sullivan
posted to citations dataone_web_resources treebase by venriquez on 2010-06-14 14:09:08 read along with 1 person druvus
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In order to have confidence in model-based phylogenetic analysis, the model of nucleotide substitution adopted must be selected in a statistically rigorous manner. Several model-selection methods are applicable to maximum likelihood (ML) analysis, including the hierarchical likelihood-ratio test (hLRT), Akaike information criterion (AIC), Bayesian information criterion (BIC), and decision theory (DT), but their performance relative to empirical data has not been investigated thoroughly. In this study, we use 250 phylogenetic data sets obtained from TreeBASE to examine the effects that choice ...
 

User:Valerie Enriquez/Notebook/DataONE Web resources - OpenWetWare

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posted to dataone_web_resources by venriquez on 2010-06-11 15:38:53 ***
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Dataverse Network Project

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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Global Ocean Data Assimilation Experiment (GODAE)

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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MyExperiment

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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PANGAEA® Publishing Network for Geoscientific & Environmental Data

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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ScratchPads Biodiversity Online

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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STD-DOI project

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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WebCite

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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WebLab

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posted to dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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WebLab: a data-centric, knowledge-sharing bioinformatic platform

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Nucleic Acids Research, Vol. 37, No. Web Server issue. (22 May 2009), W33, doi:10.1093/nar/gkp428
by Xiaoqiao Liu, Jianmin Wu, Jun Wang, et al.Xiaochuan Liu, Shuqi Zhao, Zhe Li, Lei Kong, Xiaocheng Gu, Jingchu Luo, Ge Gao
posted to articles dataone_web_resources projects by venriquez on 2010-06-11 15:38:53 ***
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10.1093/nar/gkp428

 

Bruce Wilson's "ORNL DAAC Experience With Digital Object Identifiers (DOIs)" presentation

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posted to dataone_web_resources discussion by venriquez on 2010-06-11 15:38:53 ***
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ESA - Science Resources > Data Sharing

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posted to dataone_web_resources discussion by venriquez on 2010-06-11 15:38:53 ***
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Toby Green's OECD white paper 'We Need Publishing Standards for Datasets and Data Tables'

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doi:10.1787/603233448430
posted to dataone_web_resources discussion by venriquez on 2010-06-11 15:38:53 ***
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Data citation

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(10 June 2010)
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UKOLN eBank UK project

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John Kunze, "Practical Citation in a World of Evolving Data" 2007 International Workshop on Database Preservation

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posted to dataone_web_resources discussion by venriquez on 2010-06-11 15:38:53 ***
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Jeri Schneider, "Opportunties and Challenges: Implementing Data Citation Standards" 2006 IASSIST conference

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posted to dataone_web_resources discussion by venriquez on 2010-06-11 15:38:53 ***
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Data producers deserve citation credit

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Nat Genet, Vol. 41, No. 10. (October 2009), 1045, doi:10.1038/ng1009-1045
posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 *** along with 1 person rossmounce
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10.1038/ng1009-1045

 

Compete, collaborate, compel

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Nat Genet, Vol. 39, No. 8. (August 2007), 931, doi:10.1038/ng0807-931
posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 ***
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10.1038/ng0807-931

 

Got data?

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Nat Neurosci, Vol. 10, No. 8. (August 2007), 931, doi:10.1038/nn0807-931
posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 ***
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10.1038/nn0807-931

 

Costello, M.. 2009. Motivating Online Publication of Data. Bioscience 59, no. 5, (May 1): 418-427.

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posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 ***
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Data Archiving.

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The American Naturalist, Vol. 175, No. 2. (1 February 2010), pp. 145-146, doi:10.1086/650340
posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 ***
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10.1086/650340

 

NCAS British Atmospheric Data Centre "Data Publication" (2008)

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posted to dataone_web_resources editorials by venriquez on 2010-06-11 15:38:53 ***
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A Proposed Standard for the Scholarly Citation of Quantitative Data

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D-Lib Magazine, Vol. 13, No. 3/4. (April 2007), doi:10.1045/march2007-altman
by Micah Altman, Gary King
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:53 ***/Average rating 5.0 along with 1 person Demeter
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10.1045/march2007-altman

 

Innovation in the life sciences : the impact of intellectual property rights on scientific knowledge diffusion, accumulation and utilization

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(10 June 2010)
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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DataNet: An emerging cyberinfrastructure for sharing, reusing and preserving digital data for scientific discovery and learning

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(2 March 2010), doi:10.1002/aic.12085
by Jae Lee, Jianting Zhang, Ann Zimmerman, Angelo Lucia
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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10.1002/aic.12085

 

Scratchpads: a data-publishing framework to build, share and manage information on the diversity of life

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BMC Bioinformatics, Vol. 10, No. suppl 14. (10 November 2009), S6, doi:10.1186/1471-2105-10-s14-s6
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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10.1186/1471-2105-10-s14-s6

 

Stanley, Barbara and Michael Stanley. "Data Sharing: The Primary Researcher's Perspective." Law and Human Behavior, Vol. 12, No. 2 (Jun., 1988), pp. 173-180

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PLoS ONE: BioTorrents: A File Sharing Service for Scientific Data

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posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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RESTful implementation of geospatial services for Earth and Space Science applications

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International Journal of Digital Earth, Vol. 2 (2009), 40, doi:10.1080/17538940902866153
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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10.1080/17538940902866153

 

PLoS ONE: Sharing Detailed Research Data Is Associated with Increased Citation Rate

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posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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Piwowar, HA and WW Chapman. Identifying data sharing in biomedical literature. AMIA Annu Symp Proc. 2008 Nov 6:596-600. PubMed PMID: 18998887; PubMed Central PMCID: PMC2655927

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posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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Data publication and dissemination of interactive keys under the open access model

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ZooKeys, Vol. 21 (2009), doi:10.3897/zookeys.21.274
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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10.3897/zookeys.21.274

 

Social Analysis/Watershed - Schiff, Van House, and Butler

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posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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Citation data analysis on hydrogeology

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Journal of the American Society for Information Science and Technology, Vol. 58, No. 4. (2007), 518, doi:10.1002/asi.20526
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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10.1002/asi.20526

 

Sieber JE, Trumbo BE. (Not) giving credit where credit is due: Citation of data sets. Science and Engineering Ethics. 1995. 1(1) 11-20. doi: 10.1007/BF02628694

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Data Sharing and Secondary Use of Scientific Data: Experiences of Ecologists

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(2003)
by Ann Zimmerman
posted to articles dataone_web_resources by venriquez on 2010-06-11 15:38:52 ***
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