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marcius's watchlist [1000+ articles]

Recent papers matching marcius's watchlist criteria
  • Determination of Alkali and Halide Monovalent Ion Parameters for Use in Explicitly Solvated Biomolecular Simulations
    Journal of Physical Chemistry B, Vol. 112, No. 30. (2008), pp. 9020-9041.
    by In S Joung, Thomas E Cheatham
    posted to solvation molecularsimulation moleculardynamics electrostatics by sobolevnrm on 2008-08-07 12:30:44 as read
  • Electrostatics of B-DNA in NaCl and CaCl2 Solutions: Ion Size, Interionic Correlation, and Solvent Dielectric Saturation Effects
    Journal of Physical Chemistry B, Vol. 112, No. 30. (2008), pp. 8955-8965.
    by Sergei Gavryushov
    posted to nucleicacids electrostatics by sobolevnrm on 2008-08-07 12:30:44 as read
  • Concurrent triple-scale simulation of molecular liquids
    The Journal of Chemical Physics, Vol. 128, No. 11. (2008)
    by Rafael D Buscalioni, Kurt Kremer, Matej Praprotnik
    posted to solvation multiscale by sobolevnrm on 2008-08-07 12:30:44 as read
  • Thermodynamics of charged hard spheres
    The Journal of Chemical Physics, Vol. 70, No. 1. (1979), pp. 361-369.
    by G Stell, B Larsen
    posted to statisticalmechanics electrostatics by sobolevnrm on 2008-08-07 12:30:44 as read
  • pathFinder: A Static Network Analysis Tool for Pharmacological Analysis of Signal Transduction Pathways
    Sci. Signal., Vol. 1, No. 31. (5 August 2008), pt4.
    by Babru B Samal, Lee E Eiden
    posted to tool signaling pathway network bioinformatics by renatomilani on 2008-08-06 21:55:22 as **
  • Visualizing one-dimensional diffusion of proteins along DNA
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (05 August 2008), pp. 768-774.
    by Jason Gorman, Eric C Greene
  • Structural basis of transcription inhibition by α-amanitin and implications for RNA polymerase II translocation
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (13 June 2008), pp. 811-818.
    by Florian Brueckner, Patrick Cramer
  • Synaptotagmin arrests the SNARE complex before triggering fast, efficient membrane fusion in response to Ca2+
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (11 July 2008), pp. 827-835.
    by Michael C Chicka, Enfu Hui, Huisheng Liu, Edwin R Chapman
  • A conserved face of the Jagged/Serrate DSL domain is involved in Notch trans-activation and cis-inhibition
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (27 July 2008), pp. 849-857.
    by Jemima Cordle, Steven Johnson, Joyce, Pietro Roversi, Marian B Wilkin, Beatriz H de Madrid, Hideyuki Shimizu, Sacha Jensen, Pat Whiteman, Boquan Jin, Christina Redfield, Martin Baron, Susan M Lea, Penny A Handford
  • The structure of CCT–Hsc70NBD suggests a mechanism for Hsp70 delivery of substrates to the chaperonin
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (27 July 2008), pp. 858-864.
    by Jorge Cuéllar, Jaime Martín-Benito, Sjors HW Scheres, Rui Sousa, Fernando Moro, Eduardo López-Viñas, Paulino Gómez-Puertas, Arturo Muga, José L Carrascosa, José M Valpuesta
  • Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (27 July 2008), pp. 786-794.
    by Rajani K Gudipati, Tommaso Villa, Jocelyne Boulay, Domenico Libri
  • The splicing factor SC35 has an active role in transcriptional elongation
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (20 July 2008), pp. 819-826.
    by Shengrong Lin, Gabriela Coutinho-Mansfield, Dong Wang, Shatakshi Pandit, Xiang-Dong Fu
  • The ClC-0 chloride channel is a 'broken' Cl-/H+ antiporter
    Nat Struct Mol Biol, Vol. 15, No. 8. (2008), pp. 805-810.
    by Jiri Lisal, Merritt Maduke
    posted by 1 person paulschlesinger
  • Antisense transcripts are targets for activating small RNAs
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (06 July 2008), pp. 842-848.
    by Jacob C Schwartz, Scott T Younger, Ngoc-Bich Nguyen, Daniel B Hardy, Brett P Monia, David R Corey, Bethany A Janowski
  • Eukaryotic translation initiation machinery can operate in a bacterial-like mode without eIF2
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (06 July 2008), pp. 836-841.
    by Ilya M Terenin, Sergey E Dmitriev, Dmitry E Andreev, Ivan N Shatsky
  • The Nrd1–Nab3–Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (27 July 2008), pp. 795-804.
    by Lidia Vasiljeva, Minkyu Kim, Hannes Mutschler, Stephen Buratowski, Anton Meinhart
  • Molecular recognition of nitrated fatty acids by PPARγ
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (06 July 2008), pp. 865-867.
    by Yong Li, Jifeng Zhang, Francisco J Schopfer, Dariusz Martynowski, Minerva T Garcia-Barrio, Amanda Kovach, Kelly Suino-Powell, Paul RS Baker, Bruce A Freeman, Eugene Y Chen, Eric H Xu
  • Mutation in TERT separates processivity from anchor-site function
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (20 July 2008), pp. 870-872.
    by Arthur J Zaug, Elaine R Podell, Thomas R Cech
  • NMR structure of chaperone Chz1 complexed with histones H2A.Z-H2B
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (20 July 2008), pp. 868-869.
    by Zheng Zhou, Hanqiao Feng, Flemming D Hansen, Hidenori Kato, Ed Luk, Daron I Freedberg, Lewis E Kay, Carl Wu, Yawen Bai
  • A splicing regulator promotes transcriptional elongation
    Nature Structural & Molecular Biology, Vol. 15, No. 8., pp. 779-781.
    by Juan P Fededa, Alberto R Kornblihtt
  • The chloride channel's appendix
    Nat Struct Mol Biol, Vol. 15, No. 8. (2008), pp. 781-783.
    by Joseph A Mindell
    posted by 1 person paulschlesinger
  • Fission yeast SWI/SNF and RSC complexes show compositional and functional differences from budding yeast
    Nature Structural & Molecular Biology, Vol. 15, No. 8. (11 July 2008), pp. 873-880.
    by Brendon J Monahan, Judit Villén, Samuel Marguerat, Jürg Bähler, Steven P Gygi, Fred Winston
  • A comprehensive library of histone mutants identifies nucleosomal residues required for H3K4 methylation.
    Nature structural & molecular biology (11 July 2008)
    by Shima Nakanishi, Brian W W Sanderson, Kym M M Delventhal, William D D Bradford, Karen Staehling-Hampton, Ali Shilatifard
    posted by 1 person epigenetics
  • Waste not, want not: a case for tRNA repair
    Nature Structural & Molecular Biology, Vol. 15, No. 8., pp. 783-784.
    by Eric M Phizicky
  • Terminating transcription in yeast: whether to be a 'nerd' or a 'rat'
    Nature Structural & Molecular Biology, Vol. 15, No. 8., pp. 775-776.
    by Ana G Rondon, Hannah E Mischo, Nick J Proudfoot
  • Jamming the ratchet of transcription
    Nature Structural & Molecular Biology, Vol. 15, No. 8., pp. 777-779.
    by Vladimir Svetlov, Evgeny Nudler
  • Information Content of Individual Genetic Sequences
    Journal of Theoretical Biology, Vol. 189, No. 4. (21 December 1997), pp. 427-441.
    by TD Schneider
    posted to sequence gene bioinformatics by renatomilani on 2008-08-06 21:27:28 as **
  • Earliest date for milk use in the Near East and southeastern Europe linked to cattle herding
    Nature (06 August 2008)
    by Richard P Evershed, Sebastian Payne, Andrew G Sherratt, Mark S Copley, Jennifer Coolidge, Duska Urem-Kotsu, Kostas Kotsakis, Mehmet Özdoğan, Aslý E Özdoğan, Olivier Nieuwenhuyse, Peter MMG Akkermans, Douglass Bailey, Radian-Romus Andeescu, Stuart Campbell, Shahina Farid, Ian Hodder, Nurcan Yalman, Mihriban Özbaşaran, Erhan Bıçakcı, Yossef Garfinkel, Thomas Levy, Margie M Burton
  • Neurogenin 2 controls cortical neuron migration through regulation of Rnd2
    Nature (06 August 2008)
    by Julian I Heng, Laurent Nguyen, Diogo S Castro, Céline Zimmer, Hendrik Wildner, Olivier Armant, Dorota Skowronska-Krawczyk, Francesco Bedogni, Jean-Marc Matter, Robert Hevner, François Guillemot
  • RNA interference screen for human genes associated with West Nile virus infection
    Nature (06 August 2008)
    by Manoj N Krishnan, Aylwin Ng, Bindu Sukumaran, Felicia D Gilfoy, Pradeep D Uchil, Hameeda Sultana, Abraham L Brass, Rachel Adametz, Melody Tsui, Feng Qian, Ruth R Montgomery, Sima Lev, Peter W Mason, Raymond A Koski, Stephen J Elledge, Ramnik J Xavier, Herve Agaisse, Erol Fikrig
  • The virophage as a unique parasite of the giant mimivirus
    Nature (06 August 2008)
    by Bernard La Scola, Christelle Desnues, Isabelle Pagnier, Catherine Robert, Lina Barrassi, Ghislain Fournous, Michèle Merchat, Marie Suzan-Monti, Patrick Forterre, Eugene Koonin, Didier Raoult
  • Prolyl 4-hydroxylation regulates Argonaute 2 stability
    Nature (06 August 2008)
    by Hank H Qi, Pat P Ongusaha, Johanna Myllyharju, Dongmei Cheng, Outi Pakkanen, Yujiang Shi, Sam W Lee, Junmin Peng, Yang Shi
  • Blocking of Carbon Nanotube Based Nanoinjectors by Lipids: A Simulation Study
    Nano Letters (in press)
    by Jayne E Wallace, Mark SP Sansom
    posted to nanotech biomembranes by sobolevnrm on 2008-08-06 12:16:37 as read
  • Allostery and cooperativity revisited
    Protein Sci, Vol. 17, No. 8. (2008), pp. 1295-1307.
    by Qiang Cui, Martin Karplus
    posted to review allostery by sobolevnrm on 2008-08-06 12:16:37 as read
  • Multivariate Analysis of Conserved Sequence-Structure Relationships in Kinesins: Coupling of the Active Site and a Tubulin-binding Sub-domain
    Journal of Molecular Biology, Vol. 368, No. 5. (2007), pp. 1231-1248.
    by Barry J Grant, Andrew J Mccammon, Leo SD Caves, Robert A Cross
    posted to structure quasiharmonicmodels clustering bioinformatics by sobolevnrm on 2008-08-06 12:16:37 as read
  • Bio3d: an R package for the comparative analysis of protein structures
    Bioinformatics, Vol. 22, No. 21. (2006), pp. 2695-2696.
    by Barry J Grant, Ana PC Rodrigues, Karim M Elsawy, Andrew J Mccammon, Leo SD Caves
    posted to structure quasiharmonicmodels clustering bioinformatics by sobolevnrm on 2008-08-06 12:16:36 as read
  • DNA binding to RecD: role of the 1B domain in SF1B helicase activity
    EMBO Journal (in press)
    by K Saikrishnan, SP Griffiths, N Cook, R Court, DB Wigley
    posted to structure helicase by sobolevnrm on 2008-08-06 12:16:36 as read
  • Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package annotationTools
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Alexandre Kuhn, Ruth L Carter, Mauro Delorenzi
    posted to software r_statistical microaray genomics bioinformatics bioconductor by sanchezbuelna on 2008-08-06 01:41:09 as ** along with 10 people bertelsen ablejec zhouyu jyuh jfr balicea dullhunk ghattem RamuAnandakrishnan heliopais
  • RankProd: a bioconductor package for detecting differentially expressed genes in meta-analysis.
    Bioinformatics, Vol. 22, No. 22. (15 November 2006), pp. 2825-2827.
    by F Hong, R Breitling, CW McEntee, BS Wittner, JL Nemhauser, J Chory
    posted to gene expression differential bioinformatics bioconductor by sanchezbuelna on 2008-08-06 01:38:01 as *** along with 2 people jfr waszak
  • GGtools: analysis of genetics of gene expression in bioconductor.
    Bioinformatics, Vol. 23, No. 4. (15 February 2007), pp. 522-523.
    by VJ Carey, M Morgan, S Falcon, R Lazarus, R Gentleman
    posted to genetics expression bioinformatics bioconductor by sanchezbuelna on 2008-08-06 01:35:43 as ** along with 3 people jyuh jfr waszak
  • Bioconductor: an open source framework for bioinformatics and computational biology.
    Methods Enzymol, Vol. 411 (2006), pp. 119-134.
    by M Reimers, VJ Carey
    posted to microaray computational_biology bioinformatics bioconductor by sanchezbuelna on 2008-08-06 01:33:43 as ** along with 3 people and 1 group zhouyu jeremymiller Gehrke GeschwindLab
  • Co-Evolving Motions at Protein−Protein Interfaces of Two-Component Signaling Systems Identified by Covariance Analysis
    Biochemistry, Vol. 47, No. 30. (2008), pp. 7782-7784.
    by Hendrik Szurmant, Benjamin G Bobay, Robert A White, Daniel M Sullivan, Richele J Thompson, Terence Hwa, James A Hoch, John Cavanagh
    posted to quasiharmonicmodels nmr correlatedmutations by sobolevnrm on 2008-08-05 12:14:21 as read
  • Nitric Oxide Physiological Responses and Delivery Mechanisms Probed by Water-Soluble Roussin’s Red Ester and Fe(NO)210 DNIC
    Journal of the American Chemical Society (in press)
    by Yi J Chen, Wei C Ku, Li T Feng, Ming L Tsai, Chung H Hsieh, Wen H Hsu, Wen F Liaw, Chen H Hung, Yu J Chen
    posted to no-tag by sobolevnrm on 2008-08-05 12:14:21 as read
  • Water Inside a Hydrophobic Cavitand Molecule
    Journal of Physical Chemistry B (in press)
    by Jeffrey Ewell, Bruce C Gibb, Steven W Rick
    posted to solvation nonpolar by sobolevnrm on 2008-08-05 12:14:20 as read
  • Finding noncoding RNA transcripts from low abundance expressed sequence tags
    Cell Res, Vol. 18, No. 6. (0000), pp. 695-700.
    by Chenghai Xue, Fei Li, Fei Li
    posted to rna integration by inesdesantiago on 2008-08-04 18:55:27 as *****
  • Small RNAs tell big stories in Whistler
    Nat Cell Biol, Vol. 10, No. 6. (June 2008), pp. 630-633.
    by Amy C Seila, Phillip A Sharp
    posted to rna review by inesdesantiago on 2008-08-04 18:49:20 as *** along with 2 people and 1 group reyez heliopais microRNA
  • Phenotypic transcription factors epigenetically mediate cell growth control.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 18. (6 May 2008), pp. 6632-6637.
    by SA Ali, SK Zaidi, CS Dacwag, N Salma, DW Young, AR Shakoori, MA Montecino, JB Lian, AJ van Wijnen, AN Imbalzano, GS Stein, JL Stein
    posted to transcription rna by inesdesantiago on 2008-08-04 18:27:20 as *****
  • Splicing and dicing with a SERRATEd edge.
    Proceedings of the National Academy of Sciences of the United States of America (16 June 2008)
    by Taiowa A A Montgomery, James C C Carrington
    posted to transcription rna review polymerase by inesdesantiago on 2008-08-04 17:19:23 as ***** along with 1 person bootsy
  • A PASport to Cellular Proliferation
    Cell, Vol. 134, No. 2. (25 July 2008), pp. 208-210.
    by Eitan Zlotorynski, Reuven Agami
    posted to transcription rna review by inesdesantiago on 2008-08-04 14:01:35 as *****
  • Prediction by Graph Theoretic Measures of Structural Effects in Proteins Arising from Non-Synonymous Single Nucleotide Polymorphisms
    PLoS Comput Biol, Vol. 4, No. 7. (2008)
    by Tammy MK Cheng, Yu E Lu, Michele Vendruscolo, Pietro Lio', Tom L Blundell
    posted to structure graphtheory by sobolevnrm on 2008-08-04 12:15:53 as read
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