shwu's Top Recommendations

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	Reflect: augmented browsing for the life scientist [My Copy] Nature Biotechnology In Nat Biotech, Vol. 27, No. 6. (01 June 2009), pp. 508-510. by Evangelos Pafilis, Sean I. O'Donoghue, Lars J. Jensen, et al.Heiko Horn, Michael Kuhn, Nigel P. Brown, Reinhard Schneider posted by 11 people Journal picks yas larsjuhljensen robert85 guillermosanchez3 BergmanLab cisevol druvus fgibson mikel_egana dullhunk
	Microblogging the ISMB: A New Approach to Conference Reporting [My Copy] PLoS Comput Biol, Vol. 5, No. 1. (30 January 2009), e1000263. by Neil Saunders, Pedro Beltrão, Lars Jensen, et al.Daniel Jurczak, Roland Krause, Michael Kuhn, Shirley Wu posted by 34 people Dentistry suribe druvus chriswillmott colmryan daforerog stujohnson eLearning in Leicester AJCann jobadge Web2 Semantic-Social-Networks Science 2.0 / Open Science pfanderson Yanno ulrichs ehealthgr ashwinn takeha-e logics of knowledge A_Olympia larsjuhljensen mlangill heliopais Gaetan CameronNeylon allysonlister dswan sjcockell fgibson dullhunk kshameer neils applebyb
	Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation [My Copy] Mol Syst Biol, Vol. 5 (20 January 2009) by Attila Csikasz-Nagy, Orsolya Kapuy, Attila Toth, et al.Csaba Pal, Lars J. Jensen, Frank Uhlmann, John J. Tyson, Bela Novak posted by 4 people tmmurali shikin larsjuhljensen renatomilani
	Quantifying environmental adaptation of metabolic pathways in metagenomics [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 5. (3 February 2009), pp. 1374-1379. by Tara A. Gianoulis, Jeroen Raes, Prianka V. Patel, et al.Robert Bjornson, Jan O. Korbel, Ivica Letunic, Takuji Yamada, Alberto Paccanaro, Lars J. Jensen, Michael Snyder, Peer Bork, Mark B. Gerstein posted by 19 people Paccanaro Lab paccanarolab vvoorr djkt jjray roys sharpton Lizzy_fun skembel iSEEM jlgreen Thaverkamp dbensasson anphony michaelbarton idoerg trfield larsjuhljensen jmeppley
	STRING 8--a global view on proteins and their functional interactions in 630 organisms. [My Copy] Nucleic acids research, Vol. 37, No. Database issue. (1 January 2009), pp. D412-416. by Lars J. Jensen, Michael Kuhn, Manuel Stark, et al.Samuel Chaffron, Chris Creevey, Jean Muller, Tobias Doerks, Philippe Julien, Alexander Roth, Milan Simonovic, Peer Bork, Christian von Mering posted by 18 people dfdong carlk mitko ilyashl hagechouchin443 lptolik kshameer allysonlister chad_davis larsjuhljensen druvus guhjy renatomilani grahamc Bioinformatics behindtherabbit kgutwin biehl
	BIOCHEMISTRY: Not Comparable, But Complementary [My Copy] Science, Vol. 322, No. 5898. (3 October 2008), pp. 56-57. by Lars J. Jensen, Peer Bork posted by 4 people lfriedl dullhunk marck larsjuhljensen
	Drug target identification using side-effect similarity. [My Copy] Science (New York, N.Y.), Vol. 321, No. 5886. (11 July 2008), pp. 263-266. by Monica Campillos, Michael Kuhn, Anne-Claude C. Gavin, Lars Juhl J. Jensen, Peer Bork posted by 23 people iditeru agomez guhjy frohike richardbickerton anthropomorphism npt11tpn mitko mingzhi TRHvidsten dullhunk jfr zimbo1 bpcusack jmuhlich aheilbut larsjuhljensen tmmurali askrajiv reyez roys ajaymalik raiyar
	Circular reasoning rather than cyclic expression [My Copy] Genome Biology, Vol. 9 (23 June 2008), 403. by Lars J. Jensen, Ulrik de Lichtenberg, Thomas S. Jensen, Søren Brunak, Peer Bork posted by 3 people bpcusack marck larsjuhljensen
	Structural analysis of DNA sequence: evidence for lateral gene transfer in Thermotoga maritima. [My Copy] Nucleic Acids Res, Vol. 28, No. 3. (1 February 2000), pp. 706-709. by P. Worning, L. J. Jensen, K. E. Nelson, S. Brunak, D. W. Ussery posted by 2 people karfunkel larsjuhljensen
	Three views of microbial genomes. [My Copy] Res Microbiol, Vol. 150, No. 9-10. (c 1999), pp. 773-777. by L. J. Jensen, C. Friis, D. W. Ussery posted by 1 person larsjuhljensen
	A DNA structural atlas for Escherichia coli. [My Copy] J Mol Biol, Vol. 299, No. 4. (16 June 2000), pp. 907-930. by A. G. Pedersen, L. J. Jensen, S. Brunak, H. H. Staerfeldt, D. W. Ussery posted by 1 person larsjuhljensen
	Visualization of pathogenicity regions in bacteria. [My Copy] Genetica, Vol. 108, No. 1. (2000), pp. 47-51. by C. Friis, L. J. Jensen, D. W. Ussery posted by 1 person larsjuhljensen
	Automatic discovery of regulatory patterns in promoter regions based on whole cell expression data and functional annotation. [My Copy] Bioinformatics, Vol. 16, No. 4. (April 2000), pp. 326-333. by L. J. Jensen, S. Knudsen posted by 1 person larsjuhljensen
	Orphan protein function and its relation to glycosylation. [My Copy] Ernst Schering Res Found Workshop, No. 38. (2002), pp. 276-294. by R. Gupta, L. J. Jensen, S. Brunak posted by 1 person larsjuhljensen
	Prediction of novel archaeal enzymes from sequence-derived features. [My Copy] Protein Sci, Vol. 11, No. 12. (December 2002), pp. 2894-2898. by L. J. Jensen, M. Skovgaard, S. Brunak posted by 2 people larsjuhljensen tny
	Analysis of two large functionally uncharacterized regions in the Methanopyrus kandleri AV19 genome. [My Copy] BMC Genomics, Vol. 4, No. 1. (2 April 2003) by L. J. Jensen, M. Skovgaard, T. Sicheritz-Pontén, et al.M. K. Jørgensen, C. Lundegaard, C. C. Pedersen, N. Petersen, D. Ussery posted by 1 person larsjuhljensen
	Protein feature based identification of cell cycle regulated proteins in yeast. [My Copy] J Mol Biol, Vol. 329, No. 4. (13 June 2003), pp. 663-674. by U. de Lichtenberg, T. S. Jensen, L. J. Jensen, S. Brunak posted by 1 person larsjuhljensen
	Functionality of system components: conservation of protein function in protein feature space. [My Copy] Genome Res, Vol. 13, No. 11. (November 2003), pp. 2444-2449. by L. J. Jensen, D. W. Ussery, S. Brunak posted by 1 person larsjuhljensen
	Feature-based prediction of non-classical and leaderless protein secretion. [My Copy] Protein Eng Des Sel, Vol. 17, No. 4. (April 2004), pp. 349-356. by J. D. Bendtsen, L. J. Jensen, N. Blom, G. Von Heijne, S. Brunak posted by 4 people tienholin kreibich larsjuhljensen jteyra
	Large-scale extraction of gene regulation for model organisms in an ontological context. [My Copy] In Silico Biol, Vol. 5, No. 1. (2005), pp. 21-32. by J. Saric, L. J. Jensen, I. Rojas posted by 2 people arafalov larsjuhljensen
	Spore number control and breeding in Saccharomyces cerevisiae: a key role for a self-organizing system. [My Copy] J Cell Biol, Vol. 171, No. 4. (21 November 2005), pp. 627-640. by C. Taxis, P. Keller, Z. Kavagiou, et al.L. J. Jensen, J. Colombelli, P. Bork, E. H. Stelzer, M. Knop posted by 2 people MarcJungbluth larsjuhljensen
	The more the merrier: comparative analysis of microarray studies on cell cycle-regulated genes in fission yeast. [My Copy] Yeast, Vol. 23, No. 4. (March 2006), pp. 261-277. by S. Marguerat, T. S. Jensen, U. de Lichtenberg, B. T. Wilhelm, L. J. Jensen, J. Bähler posted by 1 person larsjuhljensen
	A temporal map of transcription factor activity: mef2 directly regulates target genes at all stages of muscle development. [My Copy] Dev Cell, Vol. 10, No. 6. (June 2006), pp. 797-807. by T. Sandmann, L. J. Jensen, J. S. Jakobsen, et al.M. M. Karzynski, M. P. Eichenlaub, P. Bork, E. E. Furlong posted by 6 people lp2 daveGerrard BergmanLab larsjuhljensen roys balicea
	Evolution of cell cycle control: same molecular machines, different regulation. [My Copy] Cell Cycle, Vol. 6, No. 15. (1 August 2007), pp. 1819-1825. by U. de Lichtenberg, T. S. Jensen, S. Brunak, P. Bork, L. J. Jensen posted by 1 person larsjuhljensen
	Cyclebase.org--a comprehensive multi-organism online database of cell-cycle experiments. [My Copy] Nucleic Acids Res, Vol. 36, No. Database issue. (January 2008) by N. P. Gauthier, M. E. Larsen, R. Wernersson, et al.U. de Lichtenberg, L. J. Jensen, S. Brunak, T. S. Jensen posted by 1 person larsjuhljensen
	NetworKIN: a resource for exploring cellular phosphorylation networks. [My Copy] Nucleic Acids Res, Vol. 36, No. Database issue. (January 2008) by R. Linding, L. J. Jensen, A. Pasculescu, et al.M. Olhovsky, K. Colwill, P. Bork, M. B. Yaffe, T. Pawson posted by 7 people hryk coela larsjuhljensen brianb carlk guhjy bouncingbudha
	Enhanced function annotations for Drosophila serine proteases: A case study for systematic annotation of multi-member gene families [My Copy] Gene, Vol. 407, No. 1-2. (15 January 2008), pp. 199-215. by Parantu K. Shah, Lokesh P. Tripathi, Lars J. Jensen, et al.Murad Gahnim, Christopher Mason, Eileen E. Furlong, Veronica Rodrigues, Kevin P. White, Peer Bork, R. Sowdhamini posted by 1 person larsjuhljensen
	Large-scale prediction of drug-target relationships. [My Copy] FEBS letters, Vol. 582, No. 8. (9 April 2008), pp. 1283-1290. by M. Kuhn, M. Campillos, P. González, L. J. Jensen, P. Bork posted by 4 people daforerog mitko larsjuhljensen tjimenez
	Predicting biological networks from genomic data. [My Copy] FEBS Lett (21 February 2008) by Eoghan D D. Harrington, Lars J J. Jensen, Peer Bork posted by 8 people Borelli APRegier burak jmeppley jfr dullhunk larsjuhljensen guhjy
	Boolean Network Model Predicts Cell Cycle Sequence of Fission Yeast [My Copy] PLoS ONE, Vol. 3, No. 2. (27 February 2008), e1672. by Maria I. Davidich, Stefan Bornholdt posted by 5 people Dangerfc abhishek_tiwari joseph_x_zhou lflorez larsjuhljensen
	Visualizing Spatiotemporal Dynamics of Multicellular Cell-Cycle Progression [My Copy] Cell, Vol. 132, No. 3. (8 February 2008), pp. 487-498. by Asako Sakaue-Sawano, Hiroshi Kurokawa, Toshifumi Morimura, et al.Aki Hanyu, Hiroshi Hama, Hatsuki Osawa, Saori Kashiwagi, Kiyoko Fukami, Takaki Miyata, Hiroyuki Miyoshi, Takeshi Imamura, Masaharu Ogawa, Hisao Masai, Atsushi Miyawaki posted by 4 people yavanna larsjuhljensen NicMag guhjy
	Assessing Systems Properties of Yeast Mitochondria through an Interaction Map of the Organelle [My Copy] PLoS Genetics, Vol. 2, No. 10. (1 October 2006), e170. by Fabiana Perocchi, Lars J. Jensen, Julien Gagneur, et al.Uwe Ahting, Christian von Mering, Peer Bork, Holger Prokisch, Lars M. Steinmetz posted by 4 people mdstobbe ptrobajo kristen larsjuhljensen
	STITCH: interaction networks of chemicals and proteins. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (11 January 2008), pp. D684-688. by Michael Kuhn, Christian von Mering, Monica Campillos, Lars Juhl J. Jensen, Peer Bork posted by 12 people richardbickerton medic0747 mitko Cortel guhjy balicea massivemayhem bootsy sobolevnrm baker-group larsjuhljensen higueruelo
	Prediction of human protein function according to Gene Ontology categories [My Copy] Bioinformatics, Vol. 19, No. 5. (22 March 2003), pp. 635-642. by L. J. Jensen, R. Gupta, H. H. Staerfeldt, S. Brunak posted by 2 people sgoetz larsjuhljensen
	eggNOG: automated construction and annotation of orthologous groups of genes. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (16 January 2008), gkm796. by Lars Juhl J. Jensen, Philippe Julien, Michael Kuhn, et al.Christian von Mering, Jean Muller, Tobias Doerks, Peer Bork posted by 9 people sjcockell yas johanviklund guhjy jmeppley maximilianh Thaverkamp hplatero larsjuhljensen
	SuperTarget and Matador: resources for exploring drug-target relationships. [My Copy] Nucleic acids research, Vol. 36, No. Database issue. (16 January 2008) by S. Günther, M. Kuhn, M. Dunkel, et al.M. Campillos, C. Senger, E. Petsalaki, J. Ahmed, E. G. Urdiales, A. Gewiess, L. J. Jensen, R. Schneider, R. Skoblo, R. B. Russell, P. E. Bourne, P. Bork, R. Preissner posted by 9 people mitko dansullivanblk zimbo1 guhjy mdimmic daevans massivemayhem Evangelia larsjuhljensen
	Quantitative assessment of protein function prediction from metagenomics shotgun sequences [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 35. (28 August 2007), pp. 13913-13918. by E. D. Harrington, A. H. Singh, T. Doerks, et al.I. Letunic, C. von Mering, L. J. Jensen, J. Raes, P. Bork posted by 5 people skembel iSEEM michC bluto larsjuhljensen
	Systematic discovery of in vivo phosphorylation networks. [My Copy] Cell, Vol. 129, No. 7. (29 June 2007), pp. 1415-1426. by Rune Linding, Lars Juhl J. Jensen, Gerard J. Ostheimer, et al.Marcel A. van Vugt, Claus Jørgensen, Ioana M. Miron, Francesca Diella, Karen Colwill, Lorne Taylor, Kelly Elder, Pavel Metalnikov, Vivian Nguyen, Adrian Pasculescu, Jing Jin, Jin Gyoon G. Park, Leona D. Samson, James R. Woodgett, Robert B. Russell, Peer Bork, Michael B. Yaffe, Tony Pawson posted by 24 people rsaito jaimie nzm nedwards MatthiasReimann ptrobajo guhjy skhadar julius zwang cdppublications lp2 SysbioMPI-TCells psique robrussell Durbin group snowcrash larsjuhljensen Evangelia renatomilani carlk daed chad_davis bouncingbudha
	Quantitative phylogenetic assessment of microbial communities in diverse environments. [My Copy] Science (New York, N.Y.), Vol. 315, No. 5815. (23 February 2007), pp. 1126-1130. by C. von Mering, P. Hugenholtz, J. Raes, et al.S. G. Tringe, T. Doerks, L. J. Jensen, N. Ward, P. Bork posted by 27 people michaelbarton hwright pkm idoerg sriesenfeld skembel kozo-ni ana nickluscombe michC bluto agg19954 TaqSys azazello structural_bioinformatics Bioinformatics EBI-regulation Microbial-Ecology Thaverkamp larsjuhljensen rvgomes mjetten microbiology_nijmegen jlgreen Green Lab iSEEM djkt
	Identification of tightly regulated groups of genes during Drosophila melanogaster embryogenesis [My Copy] Mol Syst Biol, Vol. 3 (16 January 2007) by Sean D. Hooper, Stephanie Boue, Roland Krause, et al.Lars J. Jensen, Christopher E. Mason, Murad Ghanim, Kevin P. White, Eileen E. M. Furlong, Peer Bork posted by 7 people renatiux indigoviolet dpollard adepace uz_labu_laimi EisenLab larsjuhljensen
	STRING 7--recent developments in the integration and prediction of protein interactions. [My Copy] Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007) by C. von Mering, L. J. Jensen, M. Kuhn, et al.S. Chaffron, T. Doerks, B. Krüger, B. Snel, P. Bork posted by 17 people anf dragonrez druvus Cortel wenhui chad_davis guhjy kuhn balajis fisherp raiyar massivemayhem larsjuhljensen higueruelo renatomilani carlk bicko
	Co-evolution of transcriptional and post-translational cell-cycle regulation [My Copy] Nature (27 September 2006) by Lars J. Jensen, Thomas S. Jensen, Ulrik de Lichtenberg, Søren Brunak, Peer Bork posted by 9 people JAShapiro adepace koller olympos ccr cjeans EisenLab kluck larsjuhljensen
	Protein disorder prediction: implications for structural proteomics. [My Copy] Structure, Vol. 11, No. 11. (November 2003), pp. 1453-1459. by R. Linding, L. J. Jensen, F. Diella, P. Bork, T. J. Gibson, R. B. Russell posted by 2 people chad_davis larsjuhljensen
	Comparison of computational methods for the identification of cell cycle-regulated genes. [My Copy] Bioinformatics, Vol. 21, No. 7. (1 April 2005), pp. 1164-1171. by U. de Lichtenberg, L. J. Jensen, A. Fausbøll, T. S. Jensen, P. Bork, S. Brunak posted by 3 people nickluscombe EBI-regulation larsjuhljensen
	Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs [My Copy] Nat Biotech, Vol. 22, No. 7. (July 2004), pp. 911-917. by Jan O. Korbel, Lars J. Jensen, Christian von Mering, Peer Bork posted by 9 people nikkiwithers coela hagechouchin443 bicko balajis nickluscombe olympos EBI-regulation larsjuhljensen
	On the total number of genes and their length distribution in complete microbial genomes. [My Copy] Trends Genet, Vol. 17, No. 8. (August 2001), pp. 425-428. by M. Skovgaard, L. J. Jensen, S. Brunak, D. Ussery, A. Krogh posted by 2 people knaseanka larsjuhljensen
	Identification and analysis of evolutionarily cohesive functional modules in protein networks. [My Copy] Genome Res (31 January 2006) by Mónica Campillos, Christian von Mering, Lars Juhl J. Jensen, Peer Bork posted by 11 people Garamonfok lfriedl balajis nirfriedman nickluscombe koller dbgoodman kdl EBI-regulation larsjuhljensen carlk
	Proteome survey reveals modularity of the yeast cell machinery [My Copy] Nature, Vol. 440, No. 7084. (22 January 2006), pp. 631-636. by Anne-Claude Gavin, Patrick Aloy, Paola Grandi, et al.Roland Krause, Markus Boesche, Martina Marzioch, Christina Rau, Lars J. Jensen, Sonja Bastuck, Birgit Dumpelfeld, Angela Edelmann, Marie-Anne Heurtier, Verena Hoffman, Christian Hoefert, Karin Klein, Manuela Hudak, Anne-Marie Michon, Malgorzata Schelder, Markus Schirle, Marita Remor, Tatjana Rudi, Sean Hooper, Andreas Bauer, Tewis Bouwmeester, Georg Casari, Gerard Drewes, Gitte Neubauer, Jens M. Rick, Bernhard Kuster, Peer Bork, Robert B. Russell, Giulio Superti-Furga posted by 42 people aceol tomhebbron ajbattle mgomes Scis0000002 lawraga bicko saket Yanno ana Borelli lfriedl ccots jmeppley chad_davis balajis xico shantanu nirfriedman balabu dgront noano koller ruvido nicoleq lpfernandes structural_bioinformatics kdl MathBio Biostatistics Bioinformatics microRNA Computational_Systems_Biology EvolutionaryComputation Computational-Neurobiology WetBiology phoenixzxl larsjuhljensen ellakat frohike carlk ethkim
	Literature mining for the biologist: from information retrieval to biological discovery. [My Copy] Nature reviews. Genetics, Vol. 7, No. 2. (01 February 2006), pp. 119-129. by Lars Juhl J. Jensen, Jasmin Saric, Peer Bork posted by 55 people mgaldino Bioinformatics krapnik tanyacovi6 MARCOUNAM eudominguezmartin sm-rush LEONRANGEL artaban421 rocling bertelsen virolog dipenps druvus Zephyrus fgibson psique lmichan BergmanLab cisevol ilyashl henk-cul daforerog isimpson dansullivanblk yggdrasil Enro guhjy kuhn yas dullhunk hpiwowar dgront caporaso zlu jacky957 lynnefox jdiggans cjeans ghattem michaelmampaey dejori jandot T_lab biomedical-nlp ADMiRes mircea farzanehs larsjuhljensen adoms skumagai TheresaNiederberger satre akastrin ibuch
	Origin of replication in circular prokaryotic chromosomes [My Copy] Environmental Microbiology, Vol. 8, No. 2. (February 2006), pp. 353-361. by Peder Worning, Lars J. Jensen, Peter F. Hallin, Hans-Henrik Staerfeldt, David W. Ussery posted by 5 people treangen operon AaronDarling larsjuhljensen shana
	Dynamic complex formation during the yeast cell cycle. [My Copy] Science (New York, N.Y.), Vol. 307, No. 5710. (4 February 2005), pp. 724-727. by U. de Lichtenberg, L. J. Jensen, S. Brunak, P. Bork posted by 14 people chica mdimmic chad_davis balajis wnpx koller massivemayhem cjeans arne dIEMoSIRIS phoenixzxl larsjuhljensen carlk gjuggler
	Extraction of regulatory gene/protein networks from Medline. [My Copy] Bioinformatics (26 July 2005) by Jasmin Saric, Lars Juhl J. Jensen, Rossitza Ouzounova, Isabel Rojas, Peer Bork posted by 6 people kuhn balajis caporaso helliontroy biomedical-nlp larsjuhljensen
	Scoring functions for computational algorithms applicable to the design of spiked oligonucleotides [My Copy] Nucl. Acids Res., Vol. 26, No. 3. (1 February 1998), pp. 697-702. by Lj Jensen, Kv Andersen, A. Svendsen, T. Kretzschmar posted by 2 people P2324548 larsjuhljensen
	ArrayProspector: a web resource of functional associations inferred from microarray expression data. [My Copy] Nucleic acids research, Vol. 32, No. Web Server issue. (1 July 2004) by Lars Juhl J. Jensen, Julien Lagarde, Christian von Mering, Peer Bork posted by 6 people aceol okarsligil lfriedl kdl Bioinformatics larsjuhljensen
	Extraction of transcript diversity from scientific literature. [My Copy] PLoS Comput Biol, Vol. 1, No. 1. (June 2005) by P. K. Shah, L. J. Jensen, S. Boué, P. Bork posted by 5 people Cortel yas zlu T_lab larsjuhljensen
	Protein interaction networks from yeast to human. [My Copy] Current opinion in structural biology, Vol. 14, No. 3. (June 2004), pp. 292-299. by Peer Bork, Lars J. Jensen, Christian von Mering, Arun K. Ramani, Insuk Lee, Edward M. Marcotte posted by 10 people aelef jiny kuhn koller grahamc cjeans lpfernandes selrac Evangelia larsjuhljensen
	STRING: known and predicted protein-protein associations, integrated and transferred across organisms. [My Copy] Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005) by C. von Mering, L. J. Jensen, B. Snel, et al.S. D. Hooper, M. Krupp, M. Foglierini, N. Jouffre, M. A. Huynen, P. Bork posted by 10 people kuhn lfriedl nickluscombe koller iris_2001 kdl EBI-regulation Evangelia larsjuhljensen carlk
	A new non-linear normalization method for reducing variability in DNA microarray experiments. [My Copy] Genome Biol, Vol. 3, No. 9. (30 August 2002) by C. Workman, L. J. Jensen, H. Jarmer, et al.R. Berka, L. Gautier, H. B. Nielser, H. H. Saxild, C. Nielsen, S. Brunak, S. Knudsen posted by 2 people heliopais larsjuhljensen
	Systematic Association of Genes to Phenotypes by Genome and Literature Mining [My Copy] PLoS Biol, Vol. 3, No. 5. (5 April 2005), e134. by Jan O. Korbel, Tobias Doerks, Lars J. Jensen, et al.Carolina Perez-Iratxeta, Szymon Kaczanowski, Sean D. Hooper, Miguel A. Andrade, Peer Bork posted by 16 people gjuggler anthropomorphism Enro setar miguel tmmurali kuhn imouthesmp yas balajis benny hpiwowar fisherp jdiggans T_lab larsjuhljensen
	Re-analysis of data and its integration [My Copy] FEBS Letters, Vol. 579, No. 8. (21 March 2005), pp. 1802-1807. by Lars J. Jensen, Lars M. Steinmetz posted by 7 people guhjy monocyte pcahan1 raiyar steinmetzlab Carlton larsjuhljensen
	Systems biology: in the broadest sense of the word [My Copy] Environmental Microbiology, Vol. 7, No. 4. (April 2005), pp. 482-483. by W. Ussery, Jensen L. Juhl posted by 3 people wnpx biosv larsjuhljensen
	Boxed Molecular Dynamics: A Simple and General Technique for Accelerating Rare Event Kinetics and Mapping Free Energy in Large Molecular Systems [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 52. (31 December 2009), pp. 16603-16611. by David R. Glowacki, Emanuele Paci, Dmitrii V. Shalashilin posted by 7 people McCammon jmccammon agrossfield mfajer yangsiyang anuragsethi sobolevnrm
	Using the local elevation method to construct optimized umbrella sampling potentials: Calculation of the relative free energies and interconversion barriers of glucopyranose ring conformers in water [My Copy] Journal of Computational Chemistry, Vol. 31, No. 1. (2010), pp. 1-23. by Halvor S. Hansen, Philippe H. Hünenberger posted by 4 people anuragsethi McCammon jmccammon agrossfield
	Docking Flexible Peptide to Flexible Protein by Molecular Dynamics Using Two Implicit-Solvent Models: An Evaluation in Protein Kinase and Phosphatase Systems [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 43. (29 October 2009), pp. 14343-14354. by Zunnan Huang, Chung F. Wong posted by 3 people anuragsethi McCammon jmccammon
	Computational Identification of Slow Conformational Fluctuations in Proteins [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 52. (31 December 2009), pp. 16669-16680. by Arvind Ramanathan, Pratul K. Agarwal posted by 5 people anuragsethi McCammon jmccammon agrossfield qshao
	Free Energy and Kinetics of Conformational Transitions from Voronoi Tessellated Milestoning with Restraining Potentials [My Copy] Journal of Chemical Theory and Computation, Vol. 5, No. 10. (13 October 2009), pp. 2589-2594. by Luca Maragliano, Eric Vanden-Eijnden, Benoît Roux posted by 4 people McCammon jmccammon anuragsethi sobolevnrm
	Computation of conformational transitions in proteins by virtual atom molecular mechanics as validated in application to adenylate kinase. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 37. (15 September 2009), pp. 15673-15678. by Anil Korkut, Wayne A. Hendrickson posted by 4 people apaydin anuragsethi McCammon jmccammon
	Multiscale simulation of soft matter systems - from the atomistic to the coarse-grained level and back [My Copy] Soft Matter In Soft Matter, Vol. 5, No. 22. (2009), pp. 4357-4366. by Christine Peter, Kurt Kremer posted by 6 people loison McCammon jmccammon flbarroso anuragsethi sobolevnrm
	Atomistic View of the Conformational Activation of Src Kinase Using the String Method with Swarms-of-Trajectories [My Copy] Biophysical Journal, Vol. 97, No. 4. (19 August 2009), pp. L8-L10. by Wenxun Gan, Sichun Yang, Benoît Roux posted by 3 people anuragsethi McCammon jmccammon
	Predicting Ligand Binding Affinity with Alchemical Free Energy Methods in a Polar Model Binding Site [My Copy] Journal of Molecular Biology, Vol. 394, No. 4. (11 December 2009), pp. 747-763. by Sarah E. Boyce, David L. Mobley, Gabriel J. Rocklin, Alan P. Graves, Ken A. Dill, Brian K. Shoichet posted by 4 people anuragsethi McCammon jmccammon ahmetbakan
	Automated Event Detection and Activity Monitoring in Long Molecular Dynamics Simulations [My Copy] Journal of Chemical Theory and Computation, Vol. 5, No. 10. (13 October 2009), pp. 2595-2605. by Willy Wriggers, Kate A. Stafford, Yibing Shan, et al.Stefano Piana, Paul Maragakis, Kresten Lindorff-Larsen, Patrick J. Miller, Justin Gullingsrud, Charles A. Rendleman, Michael P. Eastwood, Ron O. Dror, David E. Shaw posted by 6 people paulymer anuragsethi sobolevnrm McCammon jmccammon pmung
	The intrinsic dynamics of enzymes plays a dominant role in determining the structural changes induced upon inhibitor binding [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 34. (25 August 2009), pp. 14349-14354. by Ahmet Bakan, Ivet Bahar posted by 8 people mittinatten ahmetbakan apaydin anuragsethi McCammon jmccammon okapi boris_aguilar
	Quantifying Correlations Between Allosteric Sites in Thermodynamic Ensembles [My Copy] Journal of Chemical Theory and Computation, Vol. 5, No. 9. (8 September 2009), pp. 2486-2502. by Christopher L. McClendon, Gregory Friedland, David L. Mobley, Homeira Amirkhani, Matthew P. Jacobson posted by 6 people barry McCammon jmccammon anuragsethi pmung acpan
	Polarization effects in molecular mechanical force fields [My Copy] Journal of Physics: Condensed Matter, Vol. 21, No. 33. (2009), 333102. by Piotr Cieplak, Francois-Yves Dupradeau, Yong Duan, Junmei Wang posted by 3 people anuragsethi McCammon jmccammon
	Theory of Free Energy and Entropy in Noncovalent Binding [My Copy] Chemical Reviews, Vol. 109, No. 9. (9 September 2009), pp. 4092-4107. by Huan-Xiang Zhou, Michael K. Gilson posted by 10 people McCammon jmccammon Chang group cchang agrossfield anuragsethi sobolevnrm dr_proton qshao paulschlesinger
	Dynamical networks in tRNA:protein complexes [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 16. (21 April 2009), pp. 6620-6625. by Anurag Sethi, John Eargle, Alexis A. Black, Zaida Luthey-Schulten posted by 7 people anuragsethi jeargle AbnerCYH McCammon jmccammon baker-group sobolevnrm
	Chapter 9 Analyzing Enzymatic pH Activity Profiles and Protein Titration Curves Using Structure-Based pKa Calculations and Titration Curve Fitting [My Copy] Methods in enzymology In Computer Methods, Part A, Vol. 454 (2009), pp. 233-258. by Jens E. Nielsen posted by 7 people sobolevnrm scampos anuragsethi McCammon jmccammon flbarroso baker-group
	Mapping the conformational transition in Src activation by cumulating the information from multiple molecular dynamics trajectories [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 10. (10 March 2009), pp. 3776-3781. by Sichun Yang, Nilesh K. Banavali, Benoît Roux posted by 10 people anuragsethi Diego_Prada bmduggan allmensch guhjy baker-group sobolevnrm barry McCammon jmccammon
	Fundamental Aspects of Protein−Protein Association Kinetics [My Copy] Chemical Reviews, Vol. 109, No. 3. (11 March 2009), pp. 839-860. by G. Schreiber, G. Haran, H. X. Zhou posted by 13 people anuragsethi barry sunhwan McCammon jmccammon baker-group sobolevnrm willard kafuitay carlosjavierna sschurer hadesnumb paulschlesinger
	Computations of Standard Binding Free Energies with Molecular Dynamics Simulations [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 8. (26 February 2009), pp. 2234-2246. by Yuqing Deng, Benoît Roux posted by 13 people loison anuragsethi flbarroso mikaellund baker-group sobolevnrm barry McCammon jmccammon willard agrossfield carlosjavierna ibuch
	Similarity Measures for Protein Ensembles [My Copy] PLoS ONE, Vol. 4, No. 1. (15 January 2009), e4203. by Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg posted by 13 people skywalkerus02 anuragsethi klexa apaydin baker-group sobolevnrm gane5h structural_bioinformatics barry McCammon jmccammon reyez biehl
	Dynamics of protein-protein encounter: A Langevin equation approach with reaction patches [My Copy] The Journal of Chemical Physics, Vol. 129, No. 15. (2008) by Jakob Schluttig, Denitsa Alamanova, Volkhard Helms, Ulrich S. Schwarz posted by 6 people anuragsethi barry baker-group sobolevnrm McCammon jmccammon
	Protein sorting to the cell wall envelope of Gram-positive bacteria. [My Copy] Biochimica et biophysica acta, Vol. 1694, No. 1-3. (11 November 2004), pp. 269-278. by Hung Ton-That, Luciano A. Marraffini, Olaf Schneewind posted by 1 person nyyu
	Bioinformatic comparison of bacterial secretomes. [My Copy] Genomics, proteomics & bioinformatics / Beijing Genomics Institute, Vol. 7, No. 1-2. (June 2009), pp. 37-46. by Catharine Song, Aseem Kumar, Mazen Saleh posted by 1 person nyyu
	Outside the unusual cell wall of hyperthermophilic archaeon Aeropyrum pernix. [My Copy] Molecular & cellular proteomics : MCP (28 July 2009) by Gianna Palmieri, Raffaele Cannio, Immacolata Fiume, Mosé Rossi, Gabriella Pocsfalvi posted by 1 person nyyu
	Predicting weakly stable regions, oligomerization state, and protein–protein interfaces in transmembrane domains of outer membrane proteins [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 31. (4 August 2009), pp. 12735-12740. by Hammad Naveed, Ronald Jackups, Jie Liang posted by 2 people nyyu tcschen
	A comprehensive approach to identification of surface-exposed, outer membrane-spanning proteins of Leptospira interrogans. [My Copy] PloS one, Vol. 4, No. 6. (29 June 2009), e6071. by Marija Pinne, David A. Haake posted by 1 person nyyu
	Finding sequence motifs in prokaryotic genomes--a brief practical guide for a microbiologist [My Copy] Brief Bioinform, Vol. 10, No. 5. (24 June 2009), pp. bbp032-536. by Jan Mrazek posted by 5 people Vincent_Rouilly reyez nyyu druvus nuin
	Lipoprotein biogenesis in Gram-positive bacteria: knowing when to hold 'em, knowing when to fold 'em. [My Copy] Trends in microbiology, Vol. 17, No. 1. (January 2009), pp. 13-21. by Matthew I. Hutchings, Tracy Palmer, Dean J. Harrington, Iain C. Sutcliffe posted by 1 person nyyu
	Rickettsia phylogenomics: unwinding the intricacies of obligate intracellular life. [My Copy] PloS one, Vol. 3, No. 4. (2008) by J. J. Gillespie, K. Williams, M. Shukla, et al.E. E. Snyder, E. K. Nordberg, S. M. Ceraul, C. Dharmanolla, D. Rainey, J. Soneja, J. M. Shallom, N. D. Vishnubhat, R. Wattam, A. Purkayastha, M. Czar, O. Crasta, J. C. Setubal, A. F. Azad, B. S. Sobral posted by 1 person nyyu
	Prevalence of transcription promoters within archaeal operons and coding sequences. [My Copy] Molecular systems biology, Vol. 5 (2009) by T. Koide, D. J. Reiss, J. C. Bare, et al.W. L. Pang, M. T. Facciotti, A. K. Schmid, M. Pan, B. Marzolf, P. T. Van, F. Y. Lo, A. Pratap, E. W. Deutsch, A. Peterson, D. Martin, N. S. Baliga posted by 1 person nyyu
	Evidence of extensive homologous recombination in the core genome of rickettsia. [My Copy] Comparative and functional genomics (2009) by J. Wu, T. Yu, Q. Bao, F. Zhao posted by 2 people druvus nyyu
	Common strategies for antigenic variation by bacterial, fungal and protozoan pathogens [My Copy] Nat Rev Micro, Vol. 7, No. 7. (July 2009), pp. 493-503. by Kirk W. Deitsch, Sheila A. Lukehart, James R. Stringer posted by 3 people lamyvan nyyu dansullivanblk
	Toolbox model of evolution of prokaryotic metabolic networks and their regulation [My Copy] Proceedings of the National Academy of Sciences (29 May 2009) by Sergei Maslov, Sandeep Krishna, Tin Y. Pang, Kim Sneppen posted by 4 people deanmalmgren nyyu cmtrent jjray
	Nothing about protein structure classification makes sense except in the light of evolution [My Copy] Current Opinion in Structural Biology, Vol. 19, No. 3. (24 June 2009), pp. 329-334. by Ruben E. Valas, Song Yang, Philip E. Bourne posted by 17 people dfdong mkotlyar skywalkerus02 dgront nyyu robfsouza apaydin structural_bioinformatics barry coela R.E.A.D Zephyrus baker-group sobolevnrm zwang friendpine paulschlesinger
	Long-distance delivery of bacterial virulence factors by Pseudomonas aeruginosa outer membrane vesicles. [My Copy] PLoS pathogens, Vol. 5, No. 4. (10 April 2009), e1000382. by J. M. Bomberger, D. P. Maceachran, B. A. Coutermarsh, S. Ye, G. A. O'Toole, B. A. Stanton posted by 2 people nyyu Winzer
	Sequencing the species pan-genome [My Copy] Nature Reviews Microbiology, Vol. 7, No. 4., pp. 258-259. by Stephen Bentley posted by 1 person nyyu
	The Challenge of Finding a Cure for HIV Infection [My Copy] Science, Vol. 323, No. 5919. (6 March 2009), pp. 1304-1307. by Douglas D. Richman, David M. Margolis, Martin Delaney, Warner C. Greene, Daria Hazuda, Roger J. Pomerantz posted by 5 people cwhitaker jenm09 Oxford Virology wsjames nyyu
	Virulence factor secretion and translocation by Bordetella species [My Copy] Current Opinion in Microbiology, Vol. 12, No. 1. (February 2009), pp. 88-93. by Ruchi Shrivastava, Jeff F. Miller posted by 2 people nyyu behindtherabbit
	HOBACGEN: Database System for Comparative Genomics in Bacteria [My Copy] Genome Research, Vol. 10, No. 3. (1 March 2000), pp. 379-385. by Guy Perrière, Laurent Duret, Manolo Gouy posted by 1 person nyyu