Dana MacGregor's Top Recommendations

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	Unraveling Protein Networks with Power Graph Analysis [My Copy] PLoS Comput Biol, Vol. 4, No. 7. (11 July 2008), e1000108. by Loïc Royer, Matthias Reimann, Bill Andreopoulos, Michael Schroeder posted by 27 people colmryan carlk saket diamantis yyby jfr jiny aramesh2 AbnerCYH jmuhlich MatthiasReimann royerloic Ema lptolik kengg roys reyez tmmurali nuin Borelli askrajiv renatomilani stajich Mycology sebk OPIG rsantana
	An integrated genetic, genomic and systems approach defines gene networks regulated by the interaction of light and carbon signaling pathways in Arabidopsis. [My Copy] BMC systems biology, Vol. 2 (2008) by K. E. Thum, M. J. Shin, R. A. Gutiérrez, et al.I. Mukherjee, M. S. Katari, D. Nero, D. Shasha, G. M. Coruzzi posted by 3 people lptolik Borelli kengg
	Direct targeting of light signals to a promoter element-bound transcription factor. [My Copy] Science, Vol. 288, No. 5467. (5 May 2000), pp. 859-863. by J. F. Martínez-García, E. Huq, P. H. Quail posted by 3 people lptolik kengg Plantandetc
	Plant Circadian Rhythms [My Copy] Plant Cell, Vol. 18, No. 4. (1 April 2006), pp. 792-803. by Robertson C. Mcclung posted by 2 people lptolik Borelli
	BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams [My Copy] BMC Genomics, Vol. 9, No. 1. (2008) by Tim Hulsen, Jacob de Vlieg, Wynand Alkema posted by 24 people n00c jfr lscarafia jmeppley hessec GustavoLacerda Mycology stajich dswan polivares egonw ptrobajo guhjy jameswasmuth lptolik msampson pengchy natstreet druvus barriot Zephyrus BergmanLab cisevol thulsen
	Methodology capture: discriminating between the "best" and the rest of community practice [My Copy] BMC Bioinformatics, Vol. 9 (01 September 2008), 359. by James M. Eales, John W. Pinney, Robert D. Stevens, David L. Robertson posted by 6 people fisherp guhjy gendlerk craigecht reyez lptolik
	Common physical basis of macromolecule-binding sites in proteins. [My Copy] Nucleic acids research (6 November 2008) by Yao Chi C. Chen, Carmay Lim posted by 4 people zwang lptolik reyez markchen
	Rhythmic growth explained by coincidence between internal and external cues [My Copy] Nature (24 June 2007) by Kazunari Nozue, Michael F. Covington, Paula D. Duek, et al.Séverine Lorrain, Christian Fankhauser, Stacey L. Harmer, Julin N. Maloof posted by 1 person lptolik
	Gating of the rapid shade-avoidance response by the circadian clock in plants [My Copy] Nature, Vol. 426, No. 6967. (11 December 2003), pp. 680-683. by Michael G. Salter, Keara A. Franklin, Garry C. Whitelam posted by 1 person lptolik
	Calmodulin7 Plays an Important Role as Transcriptional Regulator in Arabidopsis Seedling Development [My Copy] Plant Cell, Vol. 20, No. 7. (1 July 2008), pp. 1747-1759. by Ritu Kushwaha, Aparna Singh, Sudip Chattopadhyay posted by 1 person lptolik
	A new systematic computational approach to predicting target genes of transcription factors [My Copy] Nucl. Acids Res. (18 June 2007), gkm454. by Xinbin Dai, Ji He, Xuechun Zhao posted by 4 people lptolik GustavoLacerda druvus cabbagezs
	Design of simple synthetic RNA thermometers for temperature-controlled gene expression in Escherichia coli [My Copy] Nucl. Acids Res., Vol. 36, No. 19. (1 November 2008), e124. by Juliane Neupert, Daniel Karcher, Ralph Bock posted by 2 people lptolik nixennacht
	Mechanistic duality of transcription factor function in phytochrome signaling [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 6. (12 February 2008), pp. 2232-2237. by Bassem Al-Sady, Elise A. Kikis, Elena Monte, Peter H. Quail posted by 1 person lptolik
	Heterodimerization of type II phytochromes in Arabidopsis [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 31. (2004), pp. 11500-11505. by Robert A. Sharrock, Ted Clack posted by 1 person lptolik
	NDPK2 as a Signal Transducer in the Phytochrome-mediated Light Signaling [My Copy] J. Biol. Chem., Vol. 280, No. 7. (18 February 2005), pp. 5740-5749. by Yu Shen, Jeong-Il Kim, Pill-Soon Song posted by 1 person lptolik
	The F-Box Protein MAX2 Functions as a Positive Regulator of Photomorphogenesis in Arabidopsis [My Copy] Plant Physiol., Vol. 145, No. 4. (1 December 2007), pp. 1471-1483. by Hui Shen, Phi Luong, Enamul Huq posted by 2 people RRes123 lptolik
	Decoding of Light Signals by Plant Phytochromes and Their Interacting Proteins [My Copy] Annual Review of Plant Biology, Vol. 59, No. 1. (2008), pp. 281-311. by Gabyong Bae, Giltsu Choi posted by 1 person lptolik
	Genes encoding glycine-rich Arabidopsis thaliana proteins with RNA-binding motifs are influenced by cold treatment and an endogenous circadian rhythm. [My Copy] Plant physiology, Vol. 104, No. 3. (March 1994), pp. 1015-1025. by C. D. Carpenter, J. A. Kreps, A. E. Simon posted by 1 person lptolik
	Environmental and genetic effects on circadian clock-regulated gene expression in Arabidopsis. [My Copy] The Plant cell, Vol. 9, No. 3. (March 1997), pp. 297-304. by J. A. Kreps, A. E. Simon posted by 1 person lptolik
	The Arabidopsis Circadian Clock Incorporates a cADPR-Based Feedback Loop [My Copy] Science, Vol. 318, No. 5857. (14 December 2007), pp. 1789-1792. by Antony N. Dodd, Michael J. Gardner, Carlos T. Hotta, et al.Katharine E. Hubbard, Neil Dalchau, John Love, Jean-Maurice Assie, Fiona C. Robertson, Mia K. Jakobsen, Jorge Goncalves, Dale Sanders, Alex A. Webb posted by 1 person lptolik
	Dynamics of receptor and protein transducer homodimerisation [My Copy] BMC Systems Biology, Vol. 2, No. 1. (2008) by Julio Vera, Thomas Millat, Walter Kolch, Olaf Wolkenhauer posted by 2 people dintojose lptolik
	A relation based measure of semantic similarity for Gene Ontology annotations [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 468. by Brendan Sheehan, Aaron Quigley, Benoit Gaudin, Simon Dobson posted by 11 people MarcoAlvarez stefanorb sgoetz baker-group sobolevnrm guhjy pengchy Keywan davidecellai phoenixzxl lptolik
	Online optimization of surface plasmon resonance-based biosensor experiments for improved throughput and confidence [My Copy] Journal of Molecular Recognition, Vol. 21, No. 4. (2008), pp. 256-266. by Gregory De Crescenzo, Lyne Woodward, Bala Srinivasan posted by 1 person lptolik
	Auto-regulation of the circadian slave oscillator component AtGRP7 and regulation of its targets is impaired by a single RNA recognition motif point mutation [My Copy] The Plant Journal, Vol. 52, No. 6. (December 2007), pp. 1119-1130. by Schoning, C. Jan, Streitner, et al. Corinna, Page, R. Damian, Hennig, Sven, Uchida, Kenko, Wolf, Eva, Furuya, Masaki, Staiger, Dorothee posted by 2 people AndrewMillar lptolik
	In silico analysis of candidate genes involved in light sensing and signal transduction pathways in soybean [My Copy] Plant Biotechnology Reports, Vol. 2, No. 1. (19 April 2008), pp. 59-73. by V. Quecini, M. Zucchi, J. Pinheiro, N. Vello
	OntoDas - a tool for facilitating the construction of complex queries to the Gene Ontology [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Kieran O'Neill, Alexander Garcia, Anita Schwegmann, Rafael Jimenez, Dan Jacobson, Henning Hermjakob posted by 8 people guhjy lptolik fgibson druvus pengchy dullhunk barriot paszkows
	Applications of DNA tiling arrays for whole-genome analysis. [My Copy] Genomics, Vol. 85, No. 1. (January 2005), pp. 1-15. by T. C. Mockler, S. Chan, A. Sundaresan, H. Chen, S. E. Jacobsen, J. R. Ecker posted by 8 people JohnBallam lptolik jwestbrook mdimon King_Lab blackm0k jo_davies bozdagd
	Global protein stability profiling in mammalian cells. [My Copy] Science (New York, N.Y.), Vol. 322, No. 5903. (7 November 2008), pp. 918-923. by Hsueh-Chi Sherry C. Yen, Qikai Xu, Danny M. Chou, Zhenming Zhao, Stephen J. Elledge posted by 7 people yyfwuhan ghattem guhjy lflorez jbhiatt tyrell_turing lptolik
	Identification of SCF ubiquitin ligase substrates by global protein stability profiling. [My Copy] Science (New York, N.Y.), Vol. 322, No. 5903. (7 November 2008), pp. 923-929. by H. C. Yen, S. J. Elledge posted by 3 people guhjy lflorez lptolik
	Photoexcited CRY2 Interacts with CIB1 to Regulate Transcription and Floral Initiation in Arabidopsis [My Copy] Science, Vol. 322, No. 5907. (5 December 2008), pp. 1535-1539. by Hongtao Liu, Xuhong Yu, Kunwu Li, et al.John Klejnot, Hongyun Yang, Dominique Lisiero, Chentao Lin posted by 1 person lptolik
	Constructing disease-specific gene networks using pair-wise relevance metric: application to colon cancer identifies interleukin 8, desmin and enolase 1 as the central elements [My Copy] BMC Systems Biology, Vol. 2, No. 1. (2008) by Wei Jiang, Xia Li, Shaoqi Rao, et al.Lihong Wang, Lei Du, Chuanxing Li, Chao Wu, Hongzhi Wang, Yadong Wang, Baofeng Yang posted by 2 people jfr frohike
	Systematic identification of yeast cell cycle transcription factors using multiple data sources [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Wei S. Wu, Wen H. Li posted by 2 people lptolik behindtherabbit
	The late elongated hypocotyl Mutation of Arabidopsis Disrupts Circadian Rhythms and the Photoperiodic Control of Flowering [My Copy] Cell, Vol. 93, No. 7. (June 1998), pp. 1219-1229. by R. Schaffer posted by 1 person lptolik
	A new role for phytochromes in temperature-dependent germination [My Copy] New Phytologist, Vol. 174, No. 4. (June 2007), pp. 735-741. by Heschel, M. Shane, Selby, et al. Jessica, Butler, Colleen, Whitelam, C. Garry, Sharrock, A. Robert, Donohue, Kathleen posted by 1 person lptolik
	The Development of Protein Microarrays and Their Applications in DNA-Protein and Protein-Protein Interaction Analyses of Arabidopsis Transcription Factors [My Copy] Mol Plant, Vol. 1, No. 1. (1 January 2008), pp. 27-41. by Wei Gong, Kun He, Mike Covington, et al.S. P. Dinesh-Kumar, Michael Snyder, Stacey L. Harmer, Yu-Xian Zhu, Xing W. Deng posted by 1 person lptolik
	Information-based methods for predicting gene function from systematic gene knock-downs [My Copy] BMC Bioinformatics, Vol. 9 (29 October 2008), 463. by Matthew T. Weirauch, Christopher K. Wong, Alexandra B. Byrne, Joshua M. Stuart posted by 2 people guhjy lptolik
	The APRR1/TOC1 Quintet Implicated in Circadian Rhythms of Arabidopsis thaliana: I. Characterization with APRR1-Overexpressing Plants [My Copy] Plant Cell Physiol., Vol. 43, No. 1. (1 January 2002), pp. 58-69. by Seiya Makino, Akinori Matsushika, Masaya Kojima, Takafumi Yamashino, Takeshi Mizuno posted by 1 person lptolik
	Altered oscillator function affects clock resonance and is responsible for the reduced day-length sensitivity of CKB4 overexpressing plants [My Copy] The Plant Journal, Vol. 51, No. 6. (September 2007), pp. 966-977. by Portoles, Sergi, Mas, Paloma posted by 1 person lptolik
	HY5, Circadian Clock-Associated 1, and a cis-Element, DET1 Dark Response Element, Mediate DET1 Regulation of Chlorophyll a/b-Binding Protein 2 Expression [My Copy] Plant Physiol., Vol. 133, No. 4. (1 December 2003), pp. 1565-1577. by Bridey B. Maxwell, Carol R. Andersson, Daniel S. Poole, Steve A. Kay, Joanne Chory posted by 1 person lptolik
	PKS1, a Substrate Phosphorylated by Phytochrome That Modulates Light Signaling in Arabidopsis [My Copy] Science, Vol. 284, No. 5419. (28 May 1999), pp. 1539-1541. by Christian Fankhauser, Kuo-Chen Yeh, J. Clark, et al. Lagarias, Hong Zhang, Tedd D. Elich, Joanne Chory posted by 1 person lptolik
	The phytochrome red/far-red photoreceptor superfamily [My Copy] Genome Biology, Vol. 9 (28 August 2008), 230. by Robert A. Sharrock posted by 1 person lptolik
	SENSITIVE TO FREEZING 6 (SFR6) integrates cellular and environmental inputs to the plant circadian clock. [My Copy] Plant physiology (9 July 2008) by Heather Knight, Adrian J W J. Thomson, Harriet G G. McWatters posted by 1 person lptolik
	Distinct Light and Clock Modulation of Cytosolic Free Ca2+ Oscillations and Rhythmic CHLOROPHYLL A/B BINDING PROTEIN2 Promoter Activity in Arabidopsis [My Copy] Plant Cell, Vol. 19, No. 11. (1 November 2007), pp. 3474-3490. by Xiaodong Xu, Carlos T. Hotta, Antony N. Dodd, et al.John Love, Robert Sharrock, Young W. Lee, Qiguang Xie, Carl H. Johnson, Alex A. Webb posted by 1 person lptolik
	Critical evaluation of methods used to determine amplification efficiency refutes the exponential character of real-time PCR. [My Copy] BMC molecular biology, Vol. 9 (30 October 2008), 96. by R. G. Rutledge, D. Stewart posted by 3 people gwallau guhjy lptolik
	Independent and interdependent functions of LAF1 and HFR1 in phytochrome A signaling. [My Copy] Genes & development, Vol. 21, No. 16. (15 August 2007), pp. 2100-2111. by I. C. Jang, S. W. Yang, J. Y. Yang, N. H. Chua posted by 1 person lptolik
	Present and future of surface plasmon resonance biosensors [My Copy] Analytical and Bioanalytical Chemistry, Vol. 377, No. 3. (12 October 2003), pp. 528-539. by Jiří Homola posted by 1 person lptolik
	FLOWERING LOCUS C mediates natural variation in the high-temperature response of the Arabidopsis circadian clock. [My Copy] Plant Cell, Vol. 18, No. 3. (March 2006), pp. 639-650. by K. D. Edwards, P. E. Anderson, A. Hall, et al.N. S. Salathia, J. C. Locke, J. R. Lynn, M. Straume, J. Q. Smith, A. J. Millar posted by 4 people talponer lptolik Happybene hggr
	Ambient temperature perception in plants. [My Copy] Curr Opin Plant Biol, Vol. 8, No. 5. (October 2005), pp. 483-486. by A. Samach, P. A. Wigge posted by 2 people PGould Happybene
	Blue light receptors and signal transduction. [My Copy] Plant Cell, Vol. 14 Suppl (2002) by C. Lin posted by 1 person Happybene
	A QTL for flowering time in Arabidopsis reveals a novel allele of CRY2. [My Copy] Nat Genet, Vol. 29, No. 4. (December 2001), pp. 435-440. by S. El-Din El-Assal, C. Alonso-Blanco, A. J. Peeters, V. Raz, M. Koornneef posted by 1 person Happybene
	Circadian clock signaling in Arabidopsis thaliana: from gene expression to physiology and development. [My Copy] Int J Dev Biol, Vol. 49, No. 5-6. (2005), pp. 491-500. by P. Más posted by 2 people Happybene lptolik
	Functional Characterization of Phytochrome Interacting Factor 3 for the Arabidopsis thaliana Circadian Clockwork [My Copy] Plant and Cell Physiology, Vol. 46, No. 10. (October 2005), pp. 1591-1602. by Andras Viczian, Stefan Kircher, Erzsebet Fejes, et al.Andrew J. Millar, Eberhard Schafer, Laszlo Kozma-Bognar, Ferenc Nagy posted by 1 person lptolik
	The nuclear localization signal and the C-terminal region of FHY1 are required for transmission of phytochrome A signals. [My Copy] Plant J, Vol. 40, No. 3. (November 2004), pp. 355-365. by M. Zeidler, Q. Zhou, X. Sarda, C. P. Yau, N. H. Chua posted by 3 people lptolik kengg Plantandetc
	Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis. [My Copy] Cell, Vol. 126, No. 6. (22 September 2006), pp. 1189-1201. by X. Zhang, J. Yazaki, A. Sundaresan, et al.S. Cokus, S. W. Chan, H. Chen, I. R. Henderson, P. Shinn, M. Pellegrini, S. E. Jacobsen, J. R. Ecker posted by 7 people hroest suizifish lptolik kaarsinogen kengg tinahu Plantandetc
	Modeling and Simulation of Genetic Regulatory Systems: A Literature Review [My Copy] Journal of Computational Biology, Vol. 9, No. 1. (January 2002), pp. 67-103. by Hidde de Jong posted by 34 people mjoach Borelli qluo antonkratz reyez smac tlse65 wangbo GEB dlobo jago behindtherabbit cswinburne Jarman Lab ggallone softsimu eldan tmmurali bayesian balicea Happybene wnpx kengg noano sstoma josepe dagmar jo_davies VirtualPlants Plantandetc compneur roys maburkitt phoenixzxl
	ATTED-II provides coexpressed gene networks for Arabidopsis. [My Copy] Nucleic acids research (25 October 2008) by Takeshi Obayashi, Shinpei Hayashi, Motoshi Saeki, Hiroyuki Ohta, Kengo Kinoshita posted by 3 people lptolik druvus kengg
	Shortest Path analysis using Partial Correlations for classifying gene functions from gene expression data. [My Copy] Bioinformatics (Oxford, England) (3 November 2008) by A M M. Fitch, M B B. Jones posted by 7 people jfr Borelli druvus lptolik rdiaz guhjy Doug
	GenomeGraphs: integrated genomic data visualization with R. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by Steffen Durinck, James Bullard, Paul T. Spellman, Sandrine Dudoit posted by 20 people operon daforerog jmeppley klo psique rdiaz guhjy nuin lptolik thomaskelder pkonings natstreet polivares Zephyrus druvus barriot BergmanLab cisevol neils GeeSharpMinor
	SPRINT: A new parallel framework for R [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 558. by Jon Hill, Matthew Hambley, Thorsten Forster, et al.Muriel Mewissen, Terence Sloan, Florian Scharinger, Arthur Trew, Peter Ghazal posted by 23 people coela jfr rdiaz barry guhjy skembel fpattyn bertelsen Yanno pkonings natstreet druvus lptolik paszkows nuin BergmanLab cisevol irinamohorianu kvjanos kshameer jmeppley GeeSharpMinor pengchy
	ArrayPlex: distributed, interactive and programmatic access to genome sequence, annotation, ontology, and analytical toolsets [My Copy] Genome Biology, Vol. 9, No. 11. (2008) by Patrick Killion, Vishwanath Iyer posted by 10 people jfr aramesh2 guhjy rdiaz pengchy lptolik barriot natstreet shikin druvus
	How to infer gene networks from expression profiles [My Copy] Molecular Systems Biology, Vol. 3 (13 February 2007) by Mukesh Bansal, Vincenzo Belcastro, Alberto Ambesi-Impiombato, Diego di Bernardo posted by 41 people beete tonamswish zufar nicholasflann icq242500260 guhjy Zephyrus antonkratz phoenixzxl bertelsen isimpson daforerog poirel agonzale roys Neeperando APRegier rdiaz klo Borelli Jarman Lab ggallone ptrobajo druvus cswinburne jfr eckart_bindewald wnpx nickluscombe kengg mikaelhuss jrbanga BIBLIOma RockHI lp2 natstreet EBI-regulation Plantandetc heliopais mariakmejia tmmurali
	Genome-Scale Proteomics Reveals Arabidopsis thaliana Gene Models and Proteome Dynamics [My Copy] Science, Vol. 320, No. 5878. (16 May 2008), pp. 938-941. by Katja Baerenfaller, Jonas Grossmann, Monica A. Grobei, et al.Roger Hull, Matthias Hirsch-Hoffmann, Shaul Yalovsky, Philip Zimmermann, Ueli Grossniklaus, Wilhelm Gruissem, Sacha Baginsky posted by 9 people dandaman jmartin49 druvus timflutre renatomilani xwbcn megraw caseybrown jmjimenez
	Can single knockouts accurately single out gene functions? [My Copy] BMC systems biology, Vol. 2, No. 1. (2008) by David Deutscher, Isaac Meilijson, Stefan Schuster, Eytan Ruppin posted by 6 people michaelbarton guhjy natstreet seemu jiny lptolik
	Global identification of microRNA-target RNA pairs by parallel analysis of RNA ends. [My Copy] Nature biotechnology, Vol. 26, No. 8. (9 August 2008), pp. 941-946. by Marcelo A. German, Manoj Pillay, Dong-Hoon H. Jeong, et al.Amit Hetawal, Shujun Luo, Prakash Janardhanan, Vimal Kannan, Linda A. Rymarquis, Kan Nobuta, Rana German, Emanuele De Paoli, Cheng Lu, Gary Schroth, Blake C. Meyers, Pamela J. Green posted by 13 people guhjy valeriehilgers natstreet inesdesantiago GustavoLacerda lptolik microRNA heliopais giovenko jfr stajich Mycology megraw
	CORE_TF: a user-friendly interface to identify evolutionary conserved transcription factor binding sites in sets of co-regulated genes. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008), 495. by Matthew S. Hestand, Michiel van Galen, Michel P. Villerius, Gert-Jan J. van Ommen, Johan T. den Dunnen, Peter A. 't Hoen posted by 11 people farhat Ensembl Compara citations avilella heliopais lptolik nklee nuin GustavoLacerda natstreet maximilianh druvus
	A multivariate test of association. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 1. (1 January 2009), pp. 132-133. by Manuel A. Ferreira, Shaun M. Purcell posted by 8 people daforerog maren wimufi natstreet druvus jmeppley lptolik paszkows
	Employing conservation of co-expression to improve functional inference [My Copy] BMC Systems Biology, Vol. 2, No. 1. (2008) by Carsten Daub, Erik Sonnhammer posted by 7 people druvus ptrobajo pengchy natstreet lptolik klo barriot
	Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays [My Copy] Genome Biology, Vol. 10 (11 February 2009), R17. by Samuel, Steve A. Kay posted by 3 people JohnBallam natstreet lptolik
	Whole genome transcriptome polymorphisms in Arabidopsis thaliana [My Copy] Genome Biology, Vol. 9, No. 11. (24 November 2008), R165. by Xu Zhang, Jake Byrnes, Thomas Gal, Wen H. Li, Justin Borevitz posted by 5 people maren druvus natstreet lptolik pengchy
	WGCNA: an R package for weighted correlation network analysis. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Peter Langfelder, Steve Horvath posted by 18 people jeremymiller daforerog sficklin Bioinformatics lwaldron jfr ekotelnikova Bioinformatics - CRUK slv23 rdiaz guhjy natstreet druvus cswinburne lptolik jmeppley irinamohorianu pengchy
	The Arabidopsis FLC protein interacts directly in vivo with SOC1 and FT chromatin and is part of a high-molecular-weight protein complex [My Copy] The Plant Journal, Vol. 46, No. 2. (April 2006), pp. 183-192. by Chris A. Helliwell, Craig C. Wood, Masumi Robertson, James, Elizabeth S. Dennis posted by 4 people Happybene kengg Plantandetc ArtemPankin
	Bio-jETI: a service integration, design, and provisioning platform for orchestrated bioinformatics processes. [My Copy] BMC bioinformatics, Vol. 9 Suppl 4 (2008) by T. Margaria, C. Kubczak, B. Steffen posted by 8 people ralf_nagel gilesvelarde RepublicJoew Jodiey lptolik natstreet druvus guhjy
	InterPro: the integrative protein signature database. [My Copy] Nucleic acids research, Vol. 37, No. Database issue. (21 January 2009) by Sarah Hunter, Rolf Apweiler, Teresa K. Attwood, et al.Amos Bairoch, Alex Bateman, David Binns, Peer Bork, Ujjwal Das, Louise Daugherty, Lauranne Duquenne, Robert D. Finn, Julian Gough, Daniel Haft, Nicolas Hulo, Daniel Kahn, Elizabeth Kelly, Aurélie Laugraud, Ivica Letunic, David Lonsdale, Rodrigo Lopez, Martin Madera, John Maslen, Craig McAnulla, Jennifer McDowall, Jaina Mistry, Alex Mitchell, Nicola Mulder, Darren Natale, Christine Orengo, Antony F. Quinn, Jeremy D. Selengut, Christian J. Sigrist, Manjula Thimma, Paul D. Thomas, Franck Valentin, Derek Wilson, Cathy H. Wu, Corin Yeats posted by 5 people tomt21 BioNica lptolik nlapalu druvus
	The rules of gene expression in plants: Organ identity and gene body methylation are key factors for regulation of gene expression in Arabidopsis thaliana. [My Copy] BMC Genomics, Vol. 9 (23 September 2008), 438. by Felipe F. Aceituno, Nick Moseyko, Seung Y. Rhee, Rodrigo A. Gutierrez posted by 3 people natstreet lptolik barriot
	minet: A R/Bioconductor Package for Inferring Large Transcriptional Networks Using Mutual Information [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 461. by Patrick Meyer, Frederic Lafitte, Gianluca Bontempi posted by 10 people sotacam jfr pengchy dswan guhjy lptolik renatomilani phoenixzxl druvus natstreet
	Network Discovery Pipeline Elucidates Conserved Time-of-Day-Specific cis-Regulatory Modules. [My Copy] PLoS Genet, Vol. 4, No. 2. (1 February 2008) by Todd P P. Michael, Todd C C. Mockler, Ghislain Breton, et al.Connor McEntee, Amanda Byer, Jonathan D D. Trout, Samuel P P. Hazen, Rongkun Shen, Henry D D. Priest, Christopher M M. Sullivan, Scott A A. Givan, Marcelo Yanovsky, Fangxin Hong, Steve A A. Kay, Joanne Chory posted by 3 people druvus lptolik natstreet
	A gene wiki for community annotation of gene function. [My Copy] PLoS biology, Vol. 6, No. 7. (8 July 2008), e175. by Jon W. Huss, Camilo Orozco, James Goodale, et al.Chunlei Wu, Serge Batalov, Tim J. Vickers, Faramarz Valafar, Andrew I. Su posted by 25 people sinhaa daforerog rolawren PaoloRomano thegoose2 xingxu fuwiki lptolik druvus Mycology stajich dullhunk tharris thomaskelder sjc inesdesantiago kintoki zwang ChrisEvelo reyez kristina VisionLab GMTurner barriot guhjy
	Light-regulated transcriptional networks in higher plants [My Copy] Nature Reviews Genetics, Vol. 8, No. 3., pp. 217-230. by Yuling Jiao, On S. Lau, Xing W. Deng posted by 4 people mojopin85 dandaman lptolik echinotrix
	Antagonistic regulation of flowering-time gene SOC1 by CONSTANS and FLC via separate promoter motifs. [My Copy] EMBO J, Vol. 21, No. 16. (15 August 2002), pp. 4327-4337. by S. R. Hepworth, F. Valverde, D. Ravenscroft, A. Mouradov, G. Coupland posted by 3 people Happybene kengg Plantandetc
	Matching curated genome databases: a non trivial task [My Copy] BMC Genomics, Vol. 9 (24 October 2008), 501. by Stephane Descorps-Declere, Matthieu Barba, Bernard Labedan posted by 6 people guhjy lptolik BergmanLab cisevol druvus neils
	Predicting transcription factor specificity with all-atom models. [My Copy] Nucleic acids research (1 October 2008) by Sahand Jamal J. Rahi, Peter Virnau, Leonid A A. Mirny, Mehran Kardar posted by 7 people Jporci chrn reyez maximilianh lptolik zwang aalibes
	The Firegoose: two-way integration of diverse data from different bioinformatics web resources with desktop applications. [My Copy] BMC bioinformatics, Vol. 8 (19 November 2007), 456. by J. Christopher Bare, Paul T. Shannon, Amy K. Schmid, Nitin S. Baliga posted by 16 people thomaskelder cwperth Thaverkamp druvus kshameer lptolik guhjy jfr dullhunk neils ryanraaum mircea NCCT Lab Reading Group srp33 selatham megraw
	Involvement of GIGANTEA gene in the regulation of the cold stress response in Arabidopsis. [My Copy] Plant cell reports, Vol. 24, No. 11. (December 2005), pp. 683-690. by S. Cao, M. Ye, S. Jiang posted by 1 person PGould
	Database resources of the National Center for Biotechnology Information [My Copy] Nucl. Acids Res., Vol. 37, No. Database issue. (21 October 2008), gkn741. by Eric W. Sayers, Tanya Barrett, Dennis A. Benson, et al.Stephen H. Bryant, Kathi Canese, Vyacheslav Chetvernin, Deanna M. Church, Michael DiCuccio, Ron Edgar, Scott Federhen, Michael Feolo, Lewis Y. Geer, Wolfgang Helmberg, Yuri Kapustin, David Landsman, David J. Lipman, Thomas L. Madden, Donna R. Maglott, Vadim Miller, Ilene Mizrachi, James Ostell, Kim D. Pruitt, Gregory D. Schuler, Edwin Sequeira, Stephen T. Sherry, Martin Shumway, Karl Sirotkin, Alexandre Souvorov, Grigory Starchenko, Tatiana A. Tatusova, Lukas Wagner, Eugene Yaschenko, Jian Ye posted by 8 people vprieto daforerog robert85 References for 3DSim paper Cortel lptolik sebk reyez
	Quantitative prediction of NF-kappa B DNA-protein interactions. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 12. (11 June 2002), pp. 8167-8172. by I. A. Udalova, R. Mott, D. Field, D. Kwiatkowski posted by 5 people lptolik dpollard EisenLab cis-regulatory-evolution yevishere
	BioPP: A Tool for Web-publication of Biological Networks [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007) by Ganesh Viswanathan, German Nudelman, Sonali Patil, Stuart Sealfon posted by 5 people lptolik yas T_lab guhjy thomaskelder
	Predicting DNA recognition by Cys2His2 zinc finger proteins. [My Copy] Bioinformatics (Oxford, England) (13 November 2008) by Anton V V. Persikov, Robert Osada, Mona Singh posted by 7 people lptolik maximilianh KeatingJClub wilbur hugowill kgutwin aalibes
	Genetic regulation of root hair development in Arabidopsis thaliana: a network model. [My Copy] J Theor Biol, Vol. 204, No. 3. (7 June 2000), pp. 311-326. by L. Mendoza, E. R. Alvarez-Buylla posted by 4 people Happybene kengg Plantandetc mariakmejia
	ConsensusPathDB--a database for integrating human functional interaction networks. [My Copy] Nucleic acids research, Vol. 37, No. Database issue. (21 January 2009), gkn698. by Atanas Kamburov, Christoph Wierling, Hans Lehrach, Ralf Herwig posted by 8 people irenas ptrobajo mdstobbe lptolik guhjy barriot thomaskelder renatomilani
	A Novel Signaling Pathway Impact Analysis (SPIA) [My Copy] Bioinformatics (5 November 2008), btn577. by Adi L. Tarca, Sorin Draghici, Purvesh Khatri, et al.Sonia S. Hassan, Pooja Mittal, Jung-Sun Kim, Chong J. Kim, Juan P. Kusanovic, Roberto Romero posted by 10 people ipark-kaist bertelsen jfr heliopais lptolik ConklinLab AlexanderPico thomaskelder guhjy renatomilani
	Correlation between transcriptome and interactome mapping data from Saccharomyces cerevisiae. [My Copy] Nature genetics, Vol. 29, No. 4. (December 2001), pp. 482-486. by H. Ge, Z. Liu, G. M. Church, M. Vidal posted by 15 people jeremymiller lptolik Robinder BioGeek lfriedl wnpx mmt gespim bluto ruvido grahamc kdl kintoki roys paolomarcatili
	A PHD finger protein involved in both the vernalization and photoperiod pathways in Arabidopsis. [My Copy] Genes Dev (17 November 2006) by Sibum Sung, Robert J J. Schmitz, Richard M M. Amasino posted by 3 people Happybene kengg Plantandetc
	How to Get the Most out of Your Curation Effort [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (22 May 2009), e1000391. by Andrey Rzhetsky, Hagit Shatkay, W. John Wilbur posted by 21 people daveGerrard Orengo Group Journal Picks CorinYeats abhishek_tiwari daforerog klexa lptolik kiekyon badger_master baker-group sobolevnrm druvus martingerner BergmanLab cisevol Journal picks AlexBateman VGreiff allysonlister fgibson dullhunk
	Light-Induced Phosphorylation and Degradation of the Negative Regulator PHYTOCHROME-INTERACTING FACTOR1 from Arabidopsis Depend upon Its Direct Physical Interactions with Photoactivated Phytochromes [My Copy] Plant Cell, Vol. 20, No. 6. (1 June 2008), pp. 1586-1602. by Hui Shen, Ling Zhu, Alicia Castillon, Manoj Majee, Bruce Downie, Enamul Huq posted by 2 people lptolik jmjimenez
	Arena3D: visualization of biological networks in 3D [My Copy] BMC Systems Biology, Vol. 2, No. 1. (2008) by Georgios Pavlopoulos, Sean O'Donoghue, Venkata Satagopam, Theodoros Soldatos, Evangelos Pafilis, Reinhard Schneider posted by 13 people TRHvidsten guhjy polivares lptolik oteri oelemento dswan renatomilani pengchy reyez barriot GeeSharpMinor druvus
	BioCichlid: central dogma-based 3D visualization system of time-course microarray data on a hierarchical biological network [My Copy] Bioinformatics, Vol. 25, No. 4. (15 February 2009), pp. 543-544. by Ryosuke R. Ishiwata, Masaki S. Morioka, Soichi Ogishima, Hiroshi Tanaka posted by 6 people thomaskelder lptolik Bioinformatics dswan renatomilani dolchan
	Evading the annotation bottleneck: using sequence similarity to search non-sequence gene data. [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Michael Gilchrist, Mikkel Christensen, Richard Harland, et al.Nicolas Pollet, James Smith, Naoto Ueno, Nancy Papalopulu posted by 6 people Keywan guhjy lptolik barriot BergmanLab cisevol
	Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists [My Copy] Nucl. Acids Res., Vol. 37, No. 1. (1 January 2009), pp. 1-13. by Da W. Huang, Brad T. Sherman, Richard A. Lempicki posted by 47 people darian chasmand hzoltan ipark-kaist giovenko lwaldron jcaddy antonkratz Zephyrus shikin yaredo tonamswish ddunbar robfsouza Keywan daforerog ptrobajo rdiaz bertelsen Bioinformatics - CRUK Stew inesdesantiago heliopais ConklinLab AlexanderPico aviad_work ekotelnikova frohike aramesh2 jfr zufar ilyashl dolchan paszkows lptolik thomaskelder AbnerCYH neils tmmurali ealloza barriot druvus renatomilani pengchy phoenixzxl guhjy sjcockell
	ArrayWiki: an enabling technology for sharing public microarray data repositories and meta-analyses. [My Copy] BMC bioinformatics, Vol. 9 Suppl 6 (2008) by Todd H. Stokes, J. T. Torrance, Henry Li, May D. Wang posted by 10 people daforerog PaoloRomano neils shikin jfr lptolik yas guhjy thomaskelder GeeSharpMinor
	Characterization of Genetic Links between Two Clock-Associated Genes, GI and PRR5 in the Current Clock Model of Arabidopsis thaliana. [My Copy] Bioscience, biotechnology, and biochemistry (7 October 2008) by Hideaki Kawamura, Shogo Ito, Takafumi Yamashino, Yusuke Niwa, Norihito Nakamichi, Takeshi Mizuno posted by 1 person jackyoung