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zwang's library [552 articles]

Recent papers added to zwang's library.
  • 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
  • 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 3 people 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 **
  • 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 2 people 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 12 people and 2 groups 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 **
  • A genome-wide view of the spectrum of spontaneous mutations in yeast
    Vol. 105, No. 27. (2008), pp. 9272-9277.
    by Michael, Way, Krystalynne, Nicole, Christian, Erik, Joseph, Kazufusa, Shilpa, Daniel, Kelley
    posted to yeast mutation genome-wide by zwang on 2008-07-09 08:18:41 as **
  • Dissecting direct reprogramming through integrative genomic analysis
    Nature (28 May 2008)
    by Tarjei S Mikkelsen, Jacob Hanna, Xiaolan Zhang, Manching Ku, Marius Wernig, Patrick Schorderet, Bradley E Bernstein, Rudolf Jaenisch, Eric S Lander, Alexander Meissner
    posted to interaction genome-wide by zwang on 2008-07-09 03:18:08 as ** along with 3 people inesdesantiago jasonflannick djkt
  • Structural and Functional Studies of Nup107/Nup133 Interaction and Its Implications for the Architecture of the Nuclear Pore Complex
    Molecular Cell, Vol. 30, No. 6. (20 June 2008), pp. 721-731.
    by Thomas Boehmer, Sandra Jeudy, Ian C Berke, Thomas U Schwartz
    posted to structure interaction complex by zwang on 2008-07-07 04:18:01 as **
  • Structural Basis for the Cooperation of Hsp70 and Hsp110 Chaperones in Protein Folding
    Cell, Vol. 133, No. 6. (13 June 2008), pp. 1068-1079.
    by Sigrun Polier, Zdravko Dragovic, Ulrich F Hartl, Andreas Bracher
    posted to structure folding by zwang on 2008-07-07 04:17:04 as **
  • Importin-[beta]: Structural and Dynamic Determinants of a Molecular Spring
    Structure, Vol. 16, No. 6. (11 June 2008), pp. 906-915.
    by Ulrich Zachariae, Helmut Grubmüller
    posted to structure by zwang on 2008-07-07 04:14:27 as * along with 1 person choonpeng
  • A protocol for constructing gene targeting vectors: generating knockout mice for the cadherin family and beyond
    Nat. Protocols, Vol. 3, No. 6. (May 2008), pp. 1056-1076.
    by Sen Wu, Guoxin Ying, Qiang Wu, Mario R Capecchi
    posted to target protocol mammal by zwang on 2008-07-04 03:36:02 as ** along with 1 person dchughes
  • Footprinting protein-DNA complexes using the hydroxyl radical
    Nat. Protocols, Vol. 3, No. 6. (June 2008), pp. 1092-1100.
    by Swapan S Jain, Thomas D Tullius
    posted to protein dna complex by zwang on 2008-07-04 03:34:52 as **
  • Protein networks in disease
    Genome Res., Vol. 18, No. 4. (1 April 2008), pp. 644-652.
    by Trey Ideker, Roded Sharan
    posted to protein network by zwang on 2008-07-02 11:50:02 as ** along with 19 people balicea raiyar ptrobajo jfr brianb paolomarcatili thomaskelder gracio schuylrp jyuh tmmurali Borelli jwdietrich frohike bootsy nedwards roys mclarenv phoenixzxl
  • A generative, probabilistic model of local protein structure
    Proceedings of the National Academy of Sciences, Vol. 105, No. 26. (1 July 2008), pp. 8932-8937.
    by Wouter Boomsma, Kanti V Mardia, Charles C Taylor, Jesper Ferkinghoff-Borg, Anders Krogh, Thomas Hamelryck
    posted to structure protein modeling by zwang on 2008-07-02 11:49:14 as * along with 3 people mijam apaydin biehl
  • Evolutionary plasticity of genetic interaction networks
    Nat Genet, Vol. 40, No. 4. (April 2008), pp. 390-391.
    by Julia Tischler, Ben Lehner, Andrew G Fraser
    posted to network interaction evolution by zwang on 2008-07-02 07:47:48 as ** along with 4 people and 1 group emptyhb caseybrown smgomez ptrobajo GomezLab
  • Data and Theory Point to Mainly Additive Genetic Variance for Complex Traits
    PLoS Genet, Vol. 4, No. 2. (29 February 2008), e1000008.
    by William G Hill, Michael E Goddard, Peter M Visscher
    posted to evolution complex by zwang on 2008-07-01 11:01:10 as **
  • Using multiple templates to improve quality of homology models in automated homology modeling
    Protein Sci, Vol. 17, No. 6. (1 June 2008), pp. 990-1002.
    by Per Larsson, Bjorn Wallner, Erik Lindahl, Arne Elofsson
    posted to structure homologymodeling by zwang on 2008-07-01 08:51:22 as **
  • Kinetic barriers and the role of topology in Protein and RNA folding.
    Protein Sci (23 May 2008), ps.036319.108.
    by Tobin R Sosnick
    posted to rna protein interaction folding by zwang on 2008-07-01 08:50:56 as ***
  • Plasmid-chromosome shuffling for non-deletion alleles in yeast
    Nature Methods, Vol. 5, No. 2. (13 January 2008), pp. 167-169.
    by Zhiwei Huang, Richard S Sucgang, Yu-Yi Lin, Xiaomin Shi, Jef D Boeke, Xuewen Pan
    posted to yeast mutation gene by zwang on 2008-07-01 08:38:15 as *** along with 1 person csaveanu
  • Predicting protein function from domain content
    Bioinformatics (30 June 2008), btn312.
    by Kristoffer Forslund, Erik L Sonnhammer
    posted to protein prediction domain by zwang on 2008-07-01 02:44:42 as *** along with 2 people reyez phoenixzxl
  • Sequence Similarity Network Reveals Common Ancestry of Multidomain Proteins
    PLoS Comput Biol, Vol. 4, No. 5. (16 May 2008), e1000063.
    by Nan Song, Jacob M Joseph, George B Davis, Dannie Durand
    posted to protein domain by zwang on 2008-06-27 04:08:47 as **** along with 2 people Ema tmmurali
  • Dynamics and Design Principles of a Basic Regulatory Architecture Controlling Metabolic Pathways
    PLoS Biology, Vol. 6, No. 6. (1 June 2008), e146.
    by Chen-Shan Chin, Victor Chubukov, Emmitt R Jolly, Joe Derisi, Hao Li
    posted to regulatory pathway metabolism by zwang on 2008-06-27 04:07:53 as ** along with 4 people jjray marck michaelbarton djkt
  • Structural specificity in coiled-coil interactions
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Gevorg Grigoryan, Amy E Keating
    posted to structure interaction coil by zwang on 2008-06-27 03:58:27 as ** along with 2 people marck phoenixzxl
  • An in Vivo Map of the Yeast Protein Interactome
    Science, Vol. 320, No. 5882. (13 June 2008), pp. 1465-1470.
    by Kirill Tarassov, Vincent Messier, Christian R Landry, Stevo Radinovic, Mercedes M Molina, Igor Shames, Yelena Malitskaya, Jackie Vogel, Howard Bussey, Stephen W Michnick
    posted to yeast protein interaction genome by zwang on 2008-06-27 03:58:03 as ** along with 3 people balicea renatomilani Petersarkies
  • Coils in the membrane core are conserved and functionally important
    Journal of Molecular Biology, Vol. In Press, Accepted Manuscript
    by Anni Kauko, Kristoffer Illergård, Arne Elofsson
    posted to protein coil by zwang on 2008-06-27 03:56:58 as * along with 1 person paulschlesinger
  • A Maximum Likelihood Method for Detecting Directional Evolution in Protein Sequences and its Application to Influenza A Virus.
    Molecular biology and evolution (29 May 2008)
    by Sergei L L Kosakovsky Pond, Art F Y F Poon, Andrew J J Leigh Brown, Simon D W D Frost
    posted to sequence protein evolution by zwang on 2008-06-27 03:55:48 as ** along with 1 person and 1 group stajich Berkeley Mycology
  • Ensemble Non-negative Matrix Factorization Methods for Clustering Protein-Protein Interactions
    Bioinformatics (12 June 2008), btn286.
    by Derek Greene, Gerard Cagney, Nevan Krogan, Padraig Cunningham
    posted to protein interaction clustering by zwang on 2008-06-27 03:43:26 as **
  • Protein model refinement using an optimized physics-based all-atom force field
    Proceedings of the National Academy of Sciences, Vol. 105, No. 24. (17 June 2008), pp. 8268-8273.
    by Anna Jagielska, Liliana Wroblewska, Jeffrey Skolnick
    posted to structure protein by zwang on 2008-06-27 03:37:45 as ** along with 3 people and 2 groups barry jmccammon RamuAnandakrishnan McCammon structural_bioinformatics
  • Progress and challenges in protein structure prediction
    Current Opinion in Structural Biology, Vol. 18, No. 3. (June 2008), pp. 342-348.
    by Yang Zhang
    posted to structure protein prediction by zwang on 2008-06-27 03:37:25 as ** along with 2 people marck phoenixzxl
  • Assembly reflects evolution of protein complexes
    Nature (18 June 2008)
    by Emmanuel D Levy, Elisabetta B Erba, Carol V Robinson, Sarah A Teichmann
    posted to structure protein evolution complex by zwang on 2008-06-27 03:35:25 as **** along with 7 people phoenixzxl marck faion psique jwm neils paulschlesinger
  • The Leucine-Rich Repeat Domain of Internalin B Folds along a Polarized N-Terminal Pathway
    Structure, Vol. 16, No. 5. (7 May 2008), pp. 705-714.
    by Naomi Courtemanche, Doug Barrick
    posted to protein domain by zwang on 2008-06-26 04:08:33 as **
  • Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis
    Science, Vol. 320, No. 5883. (20 June 2008), pp. 1632-1635.
    by Ari Loytynoja, Nick Goldman
    posted to phylogeny evolution alignment by zwang on 2008-06-25 05:44:44 as *** along with 17 people and 1 group michaelbarton bpcusack bmaust gulsacan Schmidtc bpb aprasad imtechnology marck ArtemPankin djkt gjuggler hpaces dinnes chad_davis jago phoenixzxl Khavkin's lab
  • Direct observation of fast protein conformational switching
    Proceedings of the National Academy of Sciences, Vol. 105, No. 25. (24 June 2008), pp. 8619-8624.
    by Haruto Ishikawa, Kyungwon Kwak, Jean K Chung, Seongheun Kim, Michael D Fayer
    posted to structure protein by zwang on 2008-06-25 05:44:14 as **
  • Inhibition of expression of virulence genes of Yersinia pestis in Escherichia coli by external guide sequences and RNase P
    RNA (20 June 2008), rna.1120508.
    by Jae-Hyeong Ko, Mina Izadjoo, Sidney Altman
    posted to rnasep expression bacterial by zwang on 2008-06-25 04:44:36 as ****
  • Chemistry & Biology -- Yoshikuni et al.
    posted to evolution by zwang on 2008-06-22 09:48:46 as ** along with 1 person jonsta247
  • Using support vector machine combined with auto covariance to predict protein-protein interactions from protein sequences
    Nucl. Acids Res. (4 April 2008), gkn159.
    by Yanzhi Guo, Lezheng Yu, Zhining Wen, Menglong Li
    posted to svm protein prediction interaction by zwang on 2008-06-16 03:51:12 as **** along with 4 people marck phoenixzxl tmmurali jyuh
  • Global Considerations in Hierarchical Clustering Reveal Meaningful Patterns in Data
    PLoS ONE, Vol. 3, No. 5. (21 May 2008), e2247.
    by Roy Varshavsky, David Horn, Michal Linial
    posted to hierarchical clustering by zwang on 2008-06-16 03:50:35 as ***
  • Improvisation in evolution of genes and genomes: whose structure is it anyway?
    Current opinion in structural biology (17 May 2008)
    by Boris E E Shakhnovich, Eugene I I Shakhnovich
    posted to genome gene evolution by zwang on 2008-06-16 03:50:16 as ** along with 2 people marck cabbagesofdoom
  • Multiple protein sequence alignment
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Jimin Pei
    posted to sequence alignment by zwang on 2008-06-16 03:49:58 as ** along with 4 people and 1 group sobolevnrm marck paulschlesinger TOchi baker-group
  • Predicting novel RNA-RNA interactions.
    Current opinion in structural biology (14 May 2008)
    by Irmtraud M M Meyer
    posted to structure rna prediction interaction by zwang on 2008-06-16 03:49:12 as ***** along with 1 person marck
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