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hpaces's watchlist [1000+ articles]

Recent papers matching hpaces's watchlist criteria
  • Suppression of the MicroRNA Pathway by Bacterial Effector Proteins
    Science, Vol. 321, No. 5891. (15 August 2008), pp. 964-967.
    by Lionel Navarro, Florence Jay, Kinya Nomura, Sheng Y He, Olivier Voinnet
    posted to rna protein bacterial by zwang on 2008-08-16 07:33:15 as **
  • Spreading Dead Zones and Consequences for Marine Ecosystems
    Science, Vol. 321, No. 5891. (15 August 2008), pp. 926-929.
    by Robert J Diaz, Rutger Rosenberg
    posted to sequence by zwang on 2008-08-16 07:32:46 as **
  • A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome
    Science (3 July 2008), 1160342.
    by Marc Sultan, Marcel H Schulz, Hugues Richard, Alon Magen, Andreas Klingenhoff, Matthias Scherf, Martin Seifert, Tatjana Borodina, Aleksey Soldatov, Dmitri Parkhomchuk, Dominic Schmidt, Sean O'Keeffe, Stefan Haas, Martin Vingron, Hans Lehrach, Marie-Laure Yaspo
    posted to transcription sequence gene by zwang on 2008-08-16 07:32:25 as ** along with 10 people and 1 group ArtemPankin djkt Ema kjglennie balicea GeeSharpMinor dh0000 caseybrown reyez oelemento Khavkin's lab
  • Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes
    Science, Vol. 321, No. 5891. (15 August 2008), pp. 960-964.
    by Stan J Brouns, Matthijs M Jore, Magnus Lundgren, Edze R Westra, Rik J Slijkhuis, Ambrosius P Snijders, Mark J Dickman, Kira S Makarova, Eugene V Koonin, John van der Oost
    posted to rna prokaryote by zwang on 2008-08-16 07:30:42 as ** along with 1 person neils
  • The minimum information required for reporting a molecular interaction experiment (MIMIx)
    Nature Biotechnology, Vol. 25, No. 8. (08 August 2007), pp. 894-898.
    by Sandra Orchard, Lukasz Salwinski, Samuel Kerrien, Luisa Montecchi-Palazzi, Matthias Oesterheld, Volker Stümpflen, Arnaud Ceol, Andrew Chatr-Aryamontri, John Armstrong, Peter Woollard, John J Salama, Susan Moore, Jérôme Wojcik, Gary D Bader, Marc Vidal, Michael E Cusick, Mark Gerstein, Anne-Claude Gavin, Giulio Superti-Furga, Jack Greenblatt, Joel Bader, Peter Uetz, Mike Tyers, Pierre Legrain, Stan Fields, Nicola Mulder, Michael Gilson, Michael Niepmann, Lyle Burgoon, Javier, Carlos Prieto, Victoria M Perreau, Chris Hogue, Hans-Werner Mewes, Rolf Apweiler, Ioannis Xenarios, David Eisenberg, Gianni Cesareni, Henning Hermjakob
    posted to protein interaction complex by zwang on 2008-08-15 10:08:39 as **** along with 5 people and 1 group jyuh hpiwowar yeastyboy grahamc softsimu ParkinsonLab_at_MaRS
  • Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita.
    Nature biotechnology (27 July 2008)
    by Pierre Abad, Jérôme Gouzy, Jean-Marc M Aury, Philippe Castagnone-Sereno, Etienne G J G Danchin, Emeline Deleury, Laetitia Perfus-Barbeoch, Véronique Anthouard, François Artiguenave, Vivian C C Blok, Marie-Cécile C Caillaud, Pedro M M Coutinho, Corinne Dasilva, Francesca De Luca, Florence Deau, Magali Esquibet, Timothé Flutre, Jared V V Goldstone, Noureddine Hamamouch, Tarek Hewezi, Olivier Jaillon, Claire Jubin, Paola Leonetti, Marc Magliano, Tom R R Maier, Gabriel V V Markov, Paul McVeigh, Graziano Pesole, Julie Poulain, Marc Robinson-Rechavi, Erika Sallet, Béatrice Ségurens, Delphine Steinbach, Tom Tytgat, Edgardo Ugarte, Cyril van Ghelder, Pasqua Veronico, Thomas J J Baum, Mark Blaxter, Teresa Bleve-Zacheo, Eric L L Davis, Jonathan J J Ewbank, Bruno Favery, Eric Grenier, Bernard Henrissat, John T T Jones, Vincent Laudet, Aaron G G Maule, Hadi Quesneville, Marie-Noëlle N Rosso, Thomas Schiex, Geert Smant, Jean Weissenbach, Patrick Wincker
    posted to sequence genome gene by zwang on 2008-08-15 09:59:55 as ** along with 1 person timflutre
  • What is the expectation maximization algorithm?
    Nat Biotech, Vol. 26, No. 8. (2008), pp. 897-899.
    by Chuong B Do, Serafim Batzoglou
    posted to em algorithm by zwang on 2008-08-15 09:53:29 as **** along with 3 people phoenixzxl jyuh GeeSharpMinor
  • Frequent and Widespread Parallel Evolution of Protein Sequences.
    Molecular biology and evolution (25 June 2008)
    by Antonis Rokas, Sean B B Carroll
    posted to sequence protein evolution by zwang on 2008-08-15 09:42:02 as ** along with 2 people david_mcclellan nuin
  • Structural basis for translation termination on the 70S ribosome
    Nature (02 July 2008)
    by Martin Laurberg, Haruichi Asahara, Andrei Korostelev, Jianyu Zhu, Sergei Trakhanov, Harry F Noller
    posted to structure protein complex by zwang on 2008-08-15 01:52:22 as **
  • Structural basis for the selectivity of the external thioesterase of the surfactin synthetase
    Nature, Vol. 454, No. 7206., pp. 907-911.
    by Alexander Koglin, Frank Löhr, Frank Bernhard, Vladimir V Rogov, Dominique P Frueh, Eric R Strieter, Mohammad R Mofid, Peter Güntert, Gerhard Wagner, Christopher T Walsh, Mohamed A Marahiel, Volker Dötsch
    posted to structure protein by zwang on 2008-08-15 01:51:57 as **
  • Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms
    Proceedings of the National Academy of Sciences, Vol. 105, No. 32. (2008), pp. 11182-11187.
    by Kei-Ichi Okazaki, Shoji Takada
    posted to structure protein binding by zwang on 2008-08-14 07:25:41 as *
  • Genomics of cellulosic biofuels
    Nature, Vol. 454, No. 7206. (2008), pp. 841-845.
    by Edward M Rubin
    posted to biofuel by zwang on 2008-08-14 07:20:05 as **
  • A Protein Domain-Based Interactome Network for C. elegans Early Embryogenesis
    Cell, Vol. 134, No. 3. (8 August 2008), pp. 534-545.
    by Mike Boxem, Zoltan Maliga, Niels Klitgord, Na Li, Irma Lemmens, Miyeko Mana, Lorenzo de Lichtervelde, Joram D Mul, Diederik van de Peut, Maxime Devos, Nicolas Simonis, Muhammed A Yildirim, Murat Cokol, Huey-Ling Kao, Anne-Sophie de Smet, Haidong Wang, Anne-Lore Schlaitz, Tong Hao, Stuart Milstein, Changyu Fan, Mike Tipsword, Kevin Drew, Matilde Galli, Kahn Rhrissorrakrai, David Drechsel, Daphne Koller, Frederick P Roth, Lilia M Iakoucheva, Keith A Dunker, Richard Bonneau, Kristin C Gunsalus, David E Hill, Fabio Piano, Jan Tavernier, Sander van den Heuvel, Anthony A Hyman, Marc Vidal
    posted to yeast y2h protein network interaction domain by zwang on 2008-08-13 02:17:01 as **** along with 2 people chad_davis phoenixzxl
  • Large-Scale Molecular Dynamics Simulations of Self-Assembling Systems
    Science, Vol. 321, No. 5890. (8 August 2008), pp. 798-800.
    by Michael L Klein, Wataru Shinoda
    posted to dynamics assembly by zwang on 2008-08-11 09:18:35 as ** along with 3 people middledomain skumagai pbartlett
  • Impacts of protein-protein interaction domains on organism and network complexityPPI domains and organism/network complexity
    posted to protein network interaction domain by zwang on 2008-08-11 04:15:42 as **
  • Segment-based multiple sequence alignment
    Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i187-192.
    by Tobias Rausch, Anne-Katrin Emde, David Weese, Andreas Doring, Cedric Notredame, Knut Reinert
    posted to sequence alignment by zwang on 2008-08-11 04:14:42 as ** along with 5 people chad_davis aprasad Ema APRegier djkt
  • An integrative approach for predicting interactions of protein regions
    Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i35-41.
    by Sven-Eric Schelhorn, Thomas Lengauer, Mario Albrecht
    posted to protein prediction interaction domain by zwang on 2008-08-11 04:13:26 as **** along with 2 people kluck neils
  • Detection of heteromerization of more than two proteins by sequential BRET-FRET.
    Nature methods (29 June 2008)
    by Paulina Carriba, Gemma Navarro, Francisco Ciruela, Sergi Ferré, Vicent Casadó, Luigi Agnati, Antoni Cortés, Josefa Mallol, Kjell Fuxe, Enric I I Canela, Carmen Lluís, Rafael Franco
    posted to protein interaction fret fluorescent bret by zwang on 2008-08-11 03:59:34 as *** along with 1 person jyuh
  • Functional coherence in domain interaction networks
    Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i28-34.
    by Jayesh Pandey, Mehmet Koyuturk, Shankar Subramaniam, Ananth Grama
    posted to network interaction domain by zwang on 2008-08-11 03:58:01 as ** along with 1 person phoenixzxl
  • Co-evolving stability and conformational homogeneity of the human adenosine A 2a receptor
    posted to co-evolution by zwang on 2008-08-07 13:53:59 as **
  • Transition state for protein–DNA recognition
    posted to protein dna by zwang on 2008-08-07 13:07:50 as **
  • Coexpression of Linked Genes in Mammalian Genomes Is Generally Disadvantageous
    Mol Biol Evol, Vol. 25, No. 8. (1 August 2008), pp. 1555-1565.
    by Ben-Yang Liao, Jianzhi Zhang
    posted to genome expression by zwang on 2008-08-07 10:26:29 as ** along with 3 people bpcusack djkt aprasad
  • Constraints imposed by non-functional protein-protein interactions on gene expression and proteome size
    Mol Syst Biol, Vol. 4 (2008)
    by Jingshan Zhang, Sergei Maslov, Eugene I Shakhnovich
    posted to protein interaction expression by zwang on 2008-08-07 02:49:43 as ** along with 1 person Ema
  • Coevolution at protein complex interfaces can be detected by the complementarity trace with important impact for predictive docking.
    Proceedings of the National Academy of Sciences of the United States of America (29 May 2008)
    by Hocine Madaoui, Raphaël Guerois
    posted to structure prediction interface interaction co-evolution by zwang on 2008-08-06 07:42:22 as *** along with 4 people chad_davis bicko phoenixzxl cabbagesofdoom
  • Mistranslation-Induced Protein Misfolding as a Dominant Constraint on Coding-Sequence Evolution
    Cell, Vol. 134, No. 2. (25 July 2008), pp. 341-352.
    by Allan D Drummond, Claus O Wilke
    posted to protein folding evolution by zwang on 2008-08-05 03:51:11 as ** along with 3 people cambray bpcusack jjray
  • Evolvability and hierarchy in rewired bacterial gene networks
    Nature, Vol. 452, No. 7189. (17 April 2008), pp. 840-845.
    by Mark Isalan, Caroline Lemerle, Konstantinos Michalodimitrakis, Carsten Horn, Pedro Beltrao, Emanuele Raineri, Mireia Garriga-Canut, Luis Serrano
    posted to network expression evolution by zwang on 2008-08-05 03:45:03 as ** along with 18 people and 4 groups michaelbarton aheilbut chad_davis austin AbnerCYH hryk margaritis cactus dbikard Garamonfok caseybrown biehl aalibes tmmurali dullhunk neils cmzmasek josedavid BergmanLab SynBioSys Centre de Recherches Interdisciplinaires GEB
  • RNase P cleaves transient structures in some riboswitches
    posted to structure rnasep ribozyme by zwang on 2008-08-05 01:48:12 as **
  • Analysis of the residue-residue coevolution network and the functionally important residues in proteins
    posted to residue protein network co-evolution by zwang on 2008-08-01 03:26:42 as *** along with 1 person friendpine
  • Molecular architecture of native HIV-1 gp120 trimers
    posted to structure complex by zwang on 2008-07-31 06:20:24 as ****
  • Predicting and Validating Protein Interactions Using Network Structure
    PLoS Comput Biol, Vol. 4, No. 7. (25 July 2008), e1000118.
    by Pao-Yang Chen, Charlotte M Deane, Gesine Reinert
    posted to structure protein prediction network interaction by zwang on 2008-07-30 03:51:04 as **** along with 3 people phoenixzxl icq242500260 roys
  • The structural basis for an essential subunit interaction in influenza virus RNA polymerase
    posted to structure interaction influenza complex by zwang on 2008-07-30 03:44:26 as **
  • ProCope - Protein Complex Prediction and Evaluation
    Bioinformatics (17 July 2008), btn376.
    by Jan Krumsiek, Caroline C Friedel, Ralf Zimmer
    posted to protein prediction complex by zwang on 2008-07-26 10:52:18 as ** along with 2 people chad_davis jyuh
  • PIGS: Automatic prediction of antibody structures
    Bioinformatics (19 July 2008), btn341.
    by Paolo Marcatili, Alessandra Rosi, Anna Tramontano
    posted to structure prediction antibody by zwang on 2008-07-26 10:47:53 as ***
  • Predicting protein folding pathways at the mesoscopic level based on native interactions between secondary structure elements
    BMC Bioinformatics, Vol. 9 (23 July 2008), 320.
    by Qingwu Yang, Sing-Hoi Sze
    posted to structure protein prediction interaction folding by zwang on 2008-07-26 10:43:26 as *
  • Fluorescence Imaging of Membrane Dynamics
    Annual Review of Biomedical Engineering, Vol. 10, No. 1. (2008), pp. 311-338.
    by Jay T Groves, Raghuveer Parthasarathy, Martin B Forstner
    posted to fluorescent dynamics by zwang on 2008-07-23 07:12:52 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Molecular Engineering of Viral Gene Delivery Vehicles
    Annual Review of Biomedical Engineering, Vol. 10, No. 1. (2008), pp. 169-194.
    by David V Schaffer, James T Koerber, Kwang I Lim
    posted to virus structure gene by zwang on 2008-07-23 07:11:52 as **
  • Fluorescence Proteins, Live-Cell Imaging, and Mechanobiology: Seeing Is Believing
    Annual Review of Biomedical Engineering, Vol. 10, No. 1. (2008), pp. 1-38.
    by Yingxiao Wang, John YJ Shyy, Shu Chien
    posted to protein fluorescent by zwang on 2008-07-23 07:11:18 as **
  • In vivo and in vitro protein solubility assays using split GFP
    Nature Methods, Vol. 3, No. 10. (21 September 2006), pp. 845-854.
    by Stéphanie Cabantous, Geoffrey S Waldo
    posted to protein invivo invitro expression by zwang on 2008-07-23 02:04:28 as ** along with 2 people jyuh yeastyboy
  • Effect of active smoking on the human bronchial epithelium transcriptome
    BMC Genomics, Vol. 8 (29 August 2007), 297.
    by Raj Chari, Kim M Lonergan, Raymond T Ng, Calum Macaulay, Wan L Lam, Stephen Lam
    posted to sage expression cancer biotechnology bioinformatics by operon on 2008-07-22 14:39:35 as **
  • The Ascent of the Abundant: How Mutational Networks Constrain Evolution
    PLoS Comput Biol, Vol. 4, No. 7. (18 July 2008), e1000110.
    by Matthew C Cowperthwaite, Evan P Economo, William R Harcombe, Eric L Miller, Lauren A Meyers
    posted to rna network mutation modeling evolution by zwang on 2008-07-22 06:59:06 as ** along with 6 people shoshin provero biomcgary friendpine djkt Ema
  • From E-MAPs to module maps: dissecting quantitative genetic interactions using physical interactions
    Mol Syst Biol, Vol. 4 (15 July 2008)
    by Igor Ulitsky, Tomer Shlomi, Martin Kupiec, Ron Shamir
    posted to module interaction genetic by zwang on 2008-07-22 06:55:53 as ** along with 2 people ptrobajo roys
  • Parasites lead to evolution of robustness against gene loss in host signaling networks
    Mol Syst Biol, Vol. 4 (15 July 2008)
    by Marcel Salathe, Orkun S Soyer
    posted to network gene evolution by zwang on 2008-07-22 06:55:12 as ** along with 3 people Retchless renatomilani jjray
  • A Dominant Conformational Role for Amino Acid Diversity in Minimalist Protein-Protein Interfaces
    Journal of Molecular Biology, Vol. 381, No. 2. (29 August 2008), pp. 407-418.
    by Ryan N Gilbreth, Kaori Esaki, Akiko Koide, Sachdev S Sidhu, Shohei Koide
    posted to structure protein interface interaction by zwang on 2008-07-18 04:02:00 as ** along with 2 people mapplab phoenixzxl
  • Coordinated evolution of the hepatitis C virus — PNAS
    posted to evolution co-evolution by zwang on 2008-07-16 09:27:03 as **
  • Analyzing Protein Interaction Networks Using Structural Information
    Annual Review of Biochemistry, Vol. 77, No. 1. (2008)
    by Christina Kiel, Pedro Beltrao, Luis Serrano
    posted to structure review protein network interaction by zwang on 2008-07-16 04:11:11 as **** along with 5 people phoenixzxl paolomarcatili grahamc neils Evangelia
  • A Gene Wiki for Community Annotation of Gene Function
    PLoS Biology, Vol. 6, No. 7. (1 July 2008), e175.
    by Jon W Huss, Camilo Orozco, James Goodale, Chunlei Wu, Serge Batalov, Tim J Vickers, Faramarz Valafar, Andrew I Su
    posted to gene function annotation by zwang on 2008-07-14 02:46:39 as ** along with 13 people and 2 groups jyuh inesdesantiago thomaskelder GMTurner ChrisEvelo barriot kristina reyez kintoki sjc tharris dullhunk stajich VisionLab Berkeley Mycology
  • Protein-Protein Interactions in the Membrane: Sequence, Structural, and Biological Motifs
    Structure, Vol. 16, No. 7. (9 July 2008), pp. 991-1001.
    by David T Moore, Bryan W Berger, William F Degrado
    posted to structure protein interaction by zwang on 2008-07-14 02:46:16 as ** along with 2 people jonsta247 neils
  • Tertiary Interactions Determine the Accuracy of RNA Folding
    posted to rna prediction folding by zwang on 2008-07-13 08:36:12 as **
  • Yeast life span extension by depletion of 60s ribosomal subunits is mediated by Gcn4.
    Cell, Vol. 133, No. 2. (18 April 2008), pp. 292-302.
    by KK Steffen, VL MacKay, EO Kerr, M Tsuchiya, D Hu, LA Fox, N Dang, ED Johnston, JA Oakes, BN Tchao, DN Pak, S Fields, BK Kennedy, M Kaeberlein
    posted to yeast gene deletion complex cellcycle by zwang on 2008-07-10 09:28:01 as **
  • Implications for kinetochore-microtubule attachment from the structure of an engineered Ndc80 complex.
    Cell, Vol. 133, No. 3. (2 May 2008), pp. 427-439.
    by C Ciferri, S Pasqualato, E Screpanti, G Varetti, S Santaguida, G Dos Reis, A Maiolica, J Polka, JG De Luca, P De Wulf, M Salek, J Rappsilber, CA Moores, ED Salmon, A Musacchio
    posted to structure complex by zwang on 2008-07-10 09:23:58 as **
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