Tag data-standards [30 articles] Export

Recent papers classified by the tag data-standards.

	FuGEFlow: data model and markup language for flow cytometry. [My Copy] BMC bioinformatics, Vol. 10 (16 June 2009), 184. by Yu Qian, Olga Tchuvatkina, Josef Spidlen, et al.Peter Wilkinson, Maura Gasparetto, Andrew R. Jones, Frank J. Manion, Richard H. Scheuermann, Rafick-Pierre P. Sekaly, Ryan R. Brinkman posted to fuge flow_cytometry_data data_models data-standards by allysonlister on 2009-10-25 08:22:31 as
	The PSI semantic validator: a framework to check minimum information about a proteomics experiment compliance of proteomics data [My Copy] PROTEOMICS, Vol. 9999, No. 999A. (2009), NA. by Luisa Montecchi-Palazzi, Samuel Kerrien, Florian Reisinger, et al.Bruno Aranda, Andrew R. Jones, Lennart Martens, Henning Hermjakob posted to psi proteomics data-standards by sjcockell on 2009-10-21 10:16:13 as along with 1 person brianb
	'Omics Data Sharing [My Copy] Science, Vol. 326, No. 5950. (9 October 2009), pp. 234-236. by Dawn Field, Susanna-Assunta Sansone, Amanda Collis, et al.Tim Booth, Peter Dukes, Susan K. Gregurick, Karen Kennedy, Patrik Kolar, Eugene Kolker, Mary Maxon, Sian Millard, Alexis-Michel Mugabushaka, Nicola Perrin, Jacques E. Remacle, Karin Remington, Philippe Rocca-Serra, Chris F. Taylor, Mark Thorley, Bela Tiwari, John Wilbanks posted to omics data-standards data-sharing by allysonlister on 2009-10-09 14:46:23 as along with 10 people and 3 groups jmuhlich perkeo druvus dullhunk shigepong ppgardne reyez daforerog applebyb jago Journal picks Integrative Expertise for Global Health Convention on Knowledge Commons
	WebLab: a data-centric, knowledge-sharing bioinformatic platform [My Copy] Nucl. Acids Res., Vol. 37, No. suppl_2. (1 July 2009), pp. W33-39. 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 knowledge-sharing data-standards bioinformatics by fgibson on 2009-09-17 11:55:16 as along with 13 people abhishek_tiwari pekrau dullhunk leemond31 pininforthefjords nuin daforerog druvus operon guhjy psique renatomilani neils
	Report: A community standard format for the representation of protein affinity reagents. [My Copy] Molecular & cellular proteomics : MCP (14 August 2009) by David E. Gloriam, Sandra Orchard, Daniela Bertinetti, et al.Erik Bjorling, Erik Bongcam-Rudloff, Julie Bourbeillon, Andrew R. Bradbury, Antoine de Daruvar, Stefan Dubel, Roanld Frank, Toby J. Gibson, Niall Haslam, Friedrich W. Herberg, Tara Hiltke, Jorg D. Hoheisel, Samuel Kerrien, Manfred Koegl, Zoltan Konthur, Bernhard Korn, Ulf Landegren, Silvere van der Maarel, Luisa Montecchi-Palazzi, Sandrine Palcy, Henry Rodriguez, Sonja Schweinsberg, Volker Sievert, Oda Stoevesandt, Michael J. Taussig, Mathias Uhlen, Christer Wingren, Larry Gold, Peter Woollard, David J. Sherman, Hennig Hermjakob posted to psi data-standards antibodies affinity-reagent by fgibson on 2009-08-25 10:56:01 as along with 1 person niallhaslam
	The Systems Biology Graphical Notation [My Copy] Nature Biotechnology, Vol. 27, No. 8. (07 August 2009), pp. 735-741. by Nicolas L. Novere, Michael Hucka, Huaiyu Mi, et al.Stuart Moodie, Falk Schreiber, Anatoly Sorokin, Emek Demir, Katja Wegner, Mirit I. Aladjem, Sarala M. Wimalaratne, Frank T. Bergman, Ralph Gauges, Peter Ghazal, Hideya Kawaji, Lu Li, Yukiko Matsuoka, Alice Villeger, Sarah E. Boyd, Laurence Calzone, Melanie Courtot, Ugur Dogrusoz, Tom C. Freeman, Akira Funahashi, Samik Ghosh, Akiya Jouraku, Sohyoung Kim, Fedor Kolpakov, Augustin Luna, Sven Sahle, Esther Schmidt, Steven Watterson, Guanming Wu, Igor Goryanin, Douglas B. Kell, Chris Sander, Herbert Sauro, Jacky L. Snoep, Kurt Kohn, Hiroaki Kitano posted to visualization systems-biology standards sbml sbgn data-standards cellml by allysonlister on 2009-08-13 09:18:40 as along with 37 people and 3 groups greg tonamswish pablocarb josepe abc623 daforerog abhishek_tiwari robertrentzsch ngehlenborg pekrau thegoose bertelsen fgibson Borelli thomaskelder pmendes dullhunk polivares chasmand brianb roys torfinnnome guhjy Zephyrus lenov reyez apocapoc renatomilani VGreiff druvus sjcockell jandot megraw leliavski frohike fpattyn jhyang Orengo Group Journal Picks Journal picks Neuroblastoma
	A guide to the PRIDE proteomics data repository. [My Copy] Proteomics (6 August 2009) by Juan Antonio A. Vizcaíno, Richard Côté, Florian Reisinger, et al.Joe Foster, Michael Mueller, Jonathan Rameseder, Henning Hermjakob, Lennart Martens posted to data-standards pride proteomics by sjcockell on 2009-08-10 09:40:06 as along with 1 person brianb
	Standards for systems biology. [My Copy] Nature reviews. Genetics, Vol. 7, No. 8. (01 August 2006), pp. 593-605. by Alvis Brazma, Maria Krestyaninova, Ugis Sarkans posted to data-standards review-articles standards systems-biology by allysonlister on 2009-08-03 11:44:23 as along with 16 people and 3 groups irenas abhishek_tiwari ptrobajo hbricknell daforerog natstreet aalibes jfr rdiaz ronaldozhou mhucka dagmar peterli sgoetz giovenko fgibson dIEMoSIRIS compneur GelML
	Getting a grip on proteomics data - Proteomics Data Collection (ProDaC). [My Copy] Proteomics, Vol. 9999, No. 9999. (27 July 2009), NA. by Martin Eisenacher, Lennart Martens, Tanja Hardt, et al.Michael Kohl, Harald Barsnes, Kenny Helsens, Jari Häkkinen, Fredrik Levander, Ruedi Aebersold, Joël Vandekerckhove, Michael J. Dunn, Frederique Lisacek, Jennifer A. Siepen, Simon J. Hubbard, Pierre-Alain A. Binz, Martin Blüggel, Herbert Thiele, John Cottrell, Helmut E. Meyer, Rolf Apweiler, Christian Stephan posted to data-standards proteomics by sjcockell on 2009-07-31 13:45:01 as along with 1 person brianb
	Standardizing the standards [My Copy] Mol Syst Biol, Vol. 2 (21 February 2006) by John Quackenbush posted to data-standards editorial by allysonlister on 2009-07-21 10:23:45 as along with 6 people brianb neils fgibson dullhunk mhucka jfr
	Data standards for minimum information collection for antibody therapy experiments [My Copy] Protein Engineering, Design and Selection, Vol. 22, No. 3. (1 March 2009), pp. 221-224. by M. Yong, B. Tolner, S. Nagl, et al.R. B. Pedley, K. Chester, A. J. Green, A. Mayer, S. Sharma, R. Begent posted to antibody data-standards by fgibson on 2009-07-17 15:49:06 as
	PRIDE Converter: making proteomics data-sharing easy [My Copy] Nat Biotech, Vol. 27, No. 7. (July 2009), pp. 598-599. by Harald Barsnes, Juan A. Vizcaino, Ingvar Eidhammer, Lennart Martens posted to data-sharing data-standards pride proteomics by sjcockell on 2009-07-10 13:41:21 as along with 6 people robert reyez druvus guhjy brianb neils
	Ending the “Publish and Vanish” Culture: How the Data Standardization Process Will Assist in Data Harvesting [My Copy] Journal of Proteome Research, Vol. 8, No. 7. (6 July 2009), pp. 3219-3219. by Sandra Orchard posted to data-integration data-standards databases standards by allysonlister on 2009-07-07 13:40:35 as along with 4 people robert brianb neils reyez
	MIMAS 3.0 is a Multiomics Information Management and Annotation System. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 151. by Alexandre Gattiker, Leandro Hermida, Robin Liechti, et al.Ioannis Xenarios, Olivier Collin, Jacques Rougemont, Michael Primig posted to data-standards databases mage transcriptomics by allysonlister on 2009-05-20 12:30:42 as along with 9 people frohike daforerog guhjy ddunbar druvus AlexBateman kshameer barriot neils
	The Functional Genomics Experiment model (FuGE): an extensible framework for standards in functional genomics [My Copy] Nat Biotech, Vol. 25, No. 10. (October 2007), pp. 1127-1133. by Andrew R. Jones, Michael Miller, Ruedi Aebersold, et al.Rolf Apweiler, Catherine A. Ball, Alvis Brazma, James Degreef, Nigel Hardy, Henning Hermjakob, Simon J. Hubbard, Peter Hussey, Mark Igra, Helen Jenkins, Randall K. Julian, Kent Laursen, Stephen G. Oliver, Norman W. Paton, Susanna-Assunta Sansone, Ugis Sarkans, Christian J. Stoeckert, Chris F. Taylor, Patricia L. Whetzel, Joseph A. White, Paul Spellman, Angel Pizarro posted to bioinformatics data-integration data-standards fuge xml by allysonlister on 2009-05-19 11:39:04 as along with 8 people and 1 group joergkurtwegner dullhunk CameronNeylon guhjy jfr zwang alanrw fgibson GelML
	Modeling and Managing Experimental Data Using FuGE. [My Copy] Omics : a journal of integrative biology (14 May 2009) by Andrew R. Jones, Allyson L. Lister, Leandro Hermida, et al.Peter Wilkinson, Martin Eisenacher, Khalid Belhajjame, Frank Gibson, Phil Lord, Matthew Pocock, Heiko Rosenfelder, Javier Santoyo-Lopez, Anil Wipat, Norman W. W. Paton posted to data-integration data-standards fuge xml by allysonlister on 2009-05-18 17:16:34 as along with 5 people lptolik joergkurtwegner CameronNeylon fgibson dullhunk
	Managing and sharing experimental data: standards, tools and pitfalls. [My Copy] Biochem Soc Trans, Vol. 36, No. Pt 1. (February 2008), pp. 33-36. by N. W. Paton posted to bioinformatics data-integration data-standards fuge mibbi xml by allysonlister on 2009-05-18 14:19:06 as along with 6 people kshameer neils fgibson dullhunk guhjy alanrw
	Model storage, exchange and integration [My Copy] BMC Neuroscience, Vol. 7, No. Suppl 1. (2006), S11. by Nicolas Le Novere posted to data-standards modelling sbml sbo standards systems-biology by allysonlister on 2009-04-23 13:08:40 as along with 3 people and 2 groups rh020 irenas dagmar dIEMoSIRIS compneur
	Minimum information requested in the annotation of biochemical models (MIRIAM) [My Copy] Nature Biotechnology, Vol. 23, No. 12. (06 December 2005), pp. 1509-1515. by Nicolas L. Novere, Andrew Finney, Michael Hucka, et al.Upinder S. Bhalla, Fabien Campagne, Julio Collado-Vides, Edmund J. Crampin, Matt Halstead, Edda Klipp, Pedro Mendes, Poul Nielsen, Herbert Sauro, Bruce Shapiro, Jacky L. Snoep, Hugh D. Spence, Barry L. Wanner posted to data-standards model-annotation modelling sbml by allysonlister on 2009-04-15 12:00:20 as along with 15 people and 2 groups perkeo irenas jmuhlich bertelsen moonhouse schwartzjmc tjtaylor Vincent_Rouilly michaelbarton subhacom dullhunk dagmar lenov pmendes leilaperie dIEMoSIRIS compneur
	The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models [My Copy] Bioinformatics, Vol. 19, No. 4. (1 March 2003), pp. 524-531. by M. Hucka, A. Finney, H. M. Sauro, et al.H. Bolouri, J. C. Doyle, H. Kitano, and the rest of the SBML Forum:, A. P. Arkin, B. J. Bornstein, D. Bray, A. Cornish-Bowden, A. A. Cuellar, S. Dronov, E. D. Gilles, M. Ginkel, V. Gor, I. I. Goryanin, W. J. Hedley, T. C. Hodgman, J. H. Hofmeyr, P. J. Hunter, N. S. Juty, J. L. Kasberger, A. Kremling, U. Kummer, N. Le Novere, L. M. Loew, D. Lucio, P. Mendes, E. Minch, E. D. Mjolsness, Y. Nakayama, M. R. Nelson, P. F. Nielsen, T. Sakurada, J. C. Schaff, B. E. Shapiro, T. S. Shimizu, H. D. Spence, J. Stelling, K. Takahashi, M. Tomita, J. Wagner, J. Wang posted to data-standards sbml by allysonlister on 2009-02-26 14:30:47 as along with 20 people and 2 groups jporternj daforerog whitead antonkratz michaelbarton rh020 shikin subhacom irenas husain easr balajis wnpx jbchang lenov nicholasflann pmendes csanford AlexanderPico dullhunk Jiang Research Group dbk-lab
	The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data. [My Copy] Nat Biotechnol, Vol. 22, No. 2. (February 2004), pp. 177-183. by H. Hermjakob, L. Montecchi-Palazzi, G. Bader, et al.J. Wojcik, L. Salwinski, A. Ceol, S. Moore, S. Orchard, U. Sarkans, C. von Mering, B. Roechert, S. Poux, E. Jung, H. Mersch, P. Kersey, M. Lappe, Y. Li, R. Zeng, D. Rana, M. Nikolski, H. Husi, C. Brun, K. Shanker, S. G. Grant, C. Sander, P. Bork, W. Zhu, A. Pandey, A. Brazma, B. Jacq, M. Vidal, D. Sherman, P. Legrain, G. Cesareni, I. Xenarios, D. Eisenberg, B. Steipe, C. Hogue, R. Apweiler posted to data-standards by allysonlister on 2009-02-21 17:35:56 as along with 6 people and 1 group irenas balajis grahamc jmuhlich lpfernandes lenov dbk-lab
	Data for the masses [My Copy] Nature, Vol. 457, No. 7226. (January 2009), pp. 129-129. posted to data-standards review-articles by allysonlister on 2009-01-08 14:24:17 as along with 4 people tnhh reyez fgibson dullhunk
	Big data: The future of biocuration [My Copy] Nature, Vol. 455, No. 7209. (03 September 2008), pp. 47-50. by Doug Howe, Maria Costanzo, Petra Fey, et al.Takashi Gojobori, Linda Hannick, Winston Hide, David P. Hill, Renate Kania, Mary Schaeffer, Susan St Pierre, Simon Twigger, Owen White, Seung Yon Rhee posted to bioinformatics curation data-standards by allysonlister on 2008-12-05 09:17:34 as along with 22 people and 1 group applebyb shankark abhishek_tiwari kshameer barriot eesruiz daforerog guhjy jfr lindenb natstreet christoph_steinbeck thomaskelder druvus vobios hpiwowar amarois Zephyrus psique fgibson dullhunk neils Roswell Cancer Crosstalk
	Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project [My Copy] Nat Biotech, Vol. 26, No. 8. (August 2008), pp. 889-896. by Chris F. Taylor, Dawn Field, Susanna-Assunta Sansone, et al.Jan Aerts, Rolf Apweiler, Michael Ashburner, Catherine A. Ball, Pierre-Alain Binz, Molly Bogue, Tim Booth, Alvis Brazma, Ryan R. Brinkman, Adam Michael Clark, Eric W. Deutsch, Oliver Fiehn, Jennifer Fostel, Peter Ghazal, Frank Gibson, Tanya Gray, Graeme Grimes, John M. Hancock, Nigel W. Hardy, Henning Hermjakob, Randall K. Julian, Matthew Kane, Carsten Kettner, Christopher Kinsinger, Eugene Kolker, Martin Kuiper, Nicolas L. Novere, Jim Leebens-Mack, Suzanna E. Lewis, Phillip Lord, Ann-Marie Mallon, Nishanth Marthandan, Hiroshi Masuya, Ruth Mcnally, Alexander Mehrle, Norman Morrison, Sandra Orchard, John Quackenbush, James M. Reecy, Donald G. Robertson, Philippe Rocca-Serra, Henry Rodriguez, Heiko Rosenfelder, Javier Santoyo-Lopez, Richard H. Scheuermann, Daniel Schober, Barry Smith, Jason Snape, Christian J. Stoeckert, Keith Tipton, Peter Sterk, Andreas Untergasser, Jo Vandesompele, Stefan Wiemann posted to data-standards mibbi by allysonlister on 2008-12-05 09:17:28 as along with 13 people and 1 group Zephyrus plosmedicine CameronNeylon shikin jfr guhjy jandot dullhunk GeeSharpMinor ChrisEvelo lenov fgibson renatomilani GelML
	Standards for reporting bioscience data: a forward look [My Copy] Drug Discovery Today, Vol. 12, No. 13-14. (July 2007), pp. 527-533. by C. Taylor posted to bioinformatics data-standards fuge mibbi obi by allysonlister on 2008-11-10 17:45:25 as along with 3 people druvus CameronNeylon fgibson
	The First RSBI (ISA-TAB) Workshop: “Can a Simple Format Work for Complex Studies?” [My Copy] OMICS: A Journal of Integrative Biology, Vol. 12, No. 2. (2008), pp. 143-149. by Susanna-Assunta Sansone, Philippe R. Serra, Marco Brandizi, et al.Alvis Brazma, Dawn Field, Jennifer Fostel, Andrew G. Garrow, Jack Gilbert, Federico Goodsaid, Nigel Hardy, Phil Jones, Allyson Lister, Michael Miller, Norman Morrison, Tim Rayner, Nataliya Sklyar, Chris Taylor, Weida Tong, Guy Warner, Stefan Wiemann posted to data-standards fuge isa-tab by allysonlister on 2008-10-15 16:17:15 as along with 1 person ChrisEvelo
	The minimum information about a genome sequence (MIGS) specification [My Copy] Nature Biotechnology, Vol. 26, No. 5. (08 May 2008), pp. 541-547. by Dawn Field, George Garrity, Tanya Gray, et al.Norman Morrison, Jeremy Selengut, Peter Sterk, Tatiana Tatusova, Nicholas Thomson, Michael J. Allen, Samuel V. Angiuoli, Michael Ashburner, Nelson Axelrod, Sandra Baldauf, Stuart Ballard, Jeffrey Boore, Guy Cochrane, James Cole, Peter Dawyndt, Paul De Vos, Claude dePamphilis, Robert Edwards, Nadeem Faruque, Robert Feldman, Jack Gilbert, Paul Gilna, Frank O. Glockner, Philip Goldstein, Robert Guralnick, Dan Haft, David Hancock, Henning Hermjakob, Christiane Hertz-Fowler, Phil Hugenholtz, Ian Joint, Leonid Kagan, Matthew Kane, Jessie Kennedy, George Kowalchuk, Renzo Kottmann, Eugene Kolker, Saul Kravitz, Nikos Kyrpides, Jim Leebens-Mack, Suzanna E. Lewis, Kelvin Li, Allyson L. Lister, Phillip Lord, Natalia Maltsev, Victor Markowitz, Jennifer Martiny, Barbara Methe, Ilene Mizrachi, Richard Moxon, Karen Nelson, Julian Parkhill, Lita Proctor, Owen White, Susanna-Assunta Sansone, Andrew Spiers, Robert Stevens, Paul Swift, Chris Taylor, Yoshio Tateno, Adrian Tett, Sarah Turner, David Ussery, Bob Vaughan, Naomi Ward, Trish Whetzel, Ingio San Gil, Gareth Wilson, Anil Wipat posted to data-standards migs by allysonlister on 2008-10-14 11:33:27 as along with 13 people and 1 group balajis thegoose2 idoerg Thaverkamp sconlan Katje jmeppley dullhunk guhjy tharris jamselem neils jfr microbiology_nijmegen
	A Toolkit for Capturing and Sharing FuGE Experiments. [My Copy] Bioinformatics (Oxford, England) (17 September 2008) by Khalid Belhajjame, Andrew R R. Jones, Norman W W. Paton posted to data data-standards experiments fuge by fgibson on 2008-10-13 14:02:54 as along with 2 people guhjy sjcockell
	An Update on Data Standards for Gel Electrophoresis [My Copy] PROTEOMICS, Vol. 7, No. S1. (2007), pp. 35-40. by Andrew R. Jones, Frank Gibson posted to data data-model data-standards fuge gel-electrophoresis guidelines mibbi minimum proteomics psi publishing reporting requirements resources separation staining standards two-dimensional uml xml by fgibson on 2008-08-12 14:55:27 as along with 1 group GelML
	Data standards for 'omic' science. [My Copy] Nat Biotechnol, Vol. 22, No. 5. (May 2004), pp. 613-614. by J. Quackenbush posted to bioinformatics data data-standards integration omics standards by fgibson on 2008-08-11 12:11:39 as along with 2 people and 2 groups katerinakal irenas dbk-lab GelML

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fuge	11
standards	10
data	8
proteomics	7
bioinformatics	6
mibbi	5
xml	5
data-integration	4
sbml	4
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omics	3
psi	3
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pride	2
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review-articles	2
uml	2
affinity-reagent	1
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separation	1
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transcriptomics	1
two-dimensional	1
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