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ramenskys library [175 articles]

Senaste artiklarna i ramenskys bibliotek.
  • Combinatorial patterns of somatic gene mutations in cancer.
    The FASEB journal : official publication of the Federation of American Societies for Experimental Biology, Vol. 22, No. 8. (August 2008), pp. 2605-2622.
    by CH Yeang, F McCormick, A Levine
    posted to cancer by ramensky on 2008-10-05 17:15:25 as **
  • Intragenic Dominant Suppressors of glp-1, a Gene Essential for Cell-Signaling in Caenorhabditis elegans, Support a Role for cdc10/SW16/Ankyrin Motifs in GLP-1 Function
    Genetics, Vol. 135, No. 4. (1 December 1993), pp. 1023-1034.
    by JL Lissemore, PD Currie, CM Turk, EM Maine
    posted to cpds by ramensky on 2008-09-13 14:47:54 as ** along with 1 person and 1 group tharris C. elegans / WormBase
  • Genetic suppression.
    WormBook : the online review of C. elegans biology (2005), pp. 1-13.
    by J Hodgkin
    posted to cpds by ramensky on 2008-09-13 14:32:12 as ** along with 1 person and 1 group tharris C. elegans / WormBase
  • New method for fast and accurate binding-site identification and analysis.
    Chemical biology & drug design, Vol. 69, No. 2. (February 2007), pp. 146-148.
    by T Halgren
    posted to drug_design by ramensky on 2008-09-12 17:41:29 as **
  • A detailed comparison of current docking and scoring methods on systems of pharmaceutical relevance.
    Proteins, Vol. 56, No. 2. (1 August 2004), pp. 235-249.
    by E Perola, WP Walters, PS Charifson
    posted to drug_design by ramensky on 2008-09-04 15:38:13 as ** along with 4 people and 3 groups BragilMassoud yongzhao marcius schlauchi TSRI_MGL BioinfoCIPF SGU-CIPF
  • On evaluating molecular-docking methods for pose prediction and enrichment factors.
    J Chem Inf Model, Vol. 46, No. 1. (b 2006), pp. 401-415.
    by H Chen, PD Lyne, F Giordanetto, T Lovell, J Li
    posted to drug_design by ramensky on 2008-09-04 15:37:27 as ** along with 1 person BragilMassoud
  • Method for comparing the structures of protein ligand-binding sites and application for predicting protein-drug interactions
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Ryoichi Minai, Yo Matsuo, Hiroyuki Onuki, Hiroshi Hirota
    posted to selective_binding drug_design by ramensky on 2008-09-03 17:49:55 as ** along with 6 people tjimenez chad_davis massivemayhem jteyra mingzhi higueruelo
  • Side-chain flexibility in protein-ligand binding: the minimal rotation hypothesis.
    Protein Sci, Vol. 14, No. 4. (April 2005), pp. 1104-1114.
    by MI Zavodszky, LA Kuhn
    posted to drug_design by ramensky on 2008-09-03 17:46:24 as ** along with 8 people and 2 groups BragilMassoud dgruiz yongzhao nknii blackbart kazemi rsantana LamBras TCR_Signaling TSRI_MGL
  • Compensatory Mutation Partially Restores Fitness and Delays Reversion of Escape Mutation within the Immunodominant HLA-B*5703-Restricted Gag Epitope in Chronic Human Immunodeficiency Virus Type 1 Infection
    J. Virol., Vol. 81, No. 15. (1 August 2007), pp. 8346-8351.
    by Hayley Crawford, Julia G Prado, Alasdair Leslie, Stephane Hue, Isobella Honeyborne, Sharon Reddy, Mary van der Stok, Zenele Mncube, Christian Brander, Christine Rousseau, James I Mullins, Richard Kaslow, Paul Goepfert, Susan Allen, Eric Hunter, Joseph Mulenga, Photini Kiepiela, Bruce D Walker, Philip J Goulder
    posted to adaptation cpds by ramensky on 2008-08-31 14:50:00 as **
  • In silico whole-genome scanning of cancer-associated nonsynonymous SNPs and molecular characterization of a dynein light chain tumour variant
    Oncogene, Vol. aop, No. current.
    by Abdel Aouacheria, Vincent Navratil, Wenyu Wen, Ming Jiang, Dominique Mouchiroud, Christian Gautier, Manolo Gouy, Mingjie Zhang, Mingjie Zhang
    posted to cancer nssnps by ramensky on 2008-08-31 14:32:24 as ** along with 1 person Ayest
  • Prediction of Cancer Driver Mutations in Protein Kinases
    Cancer Res, Vol. 68, No. 6. (15 March 2008), pp. 1675-1682.
    by Ali Torkamani, Nicholas J Schork
    posted to cancer by ramensky on 2008-08-23 14:10:08 as **
  • Query3d: a new method for high-throughput analysis of functional residues in protein structures.
    BMC bioinformatics, Vol. 6 Suppl 4 (1 December 2005)
    by G Ausiello, A Via, M Helmer-Citterich
    posted to 3d by ramensky on 2008-08-14 18:46:54 as **
  • LigASite--a database of biologically relevant binding sites in proteins with known apo-structures.
    Nucleic acids research, Vol. 36, No. Database issue. (January 2008)
    by BH Dessailly, MF Lensink, CA Orengo, SJ Wodak
    posted to 3d drug_design by ramensky on 2008-08-13 16:10:58 as **
  • Prospects for identifying functional variation across the genome.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 102 Suppl 1 (3 May 2005), pp. 6614-6621.
    by SJ Macdonald, AD Long
    posted to rsnps by ramensky on 2008-08-03 15:56:41 as ** along with 1 person jbsaltz
  • Data mining in bioinformatics using Weka.
    Bioinformatics, Vol. 20, No. 15. (12 October 2004), pp. 2479-2481.
    by E Frank, M Hall, L Trigg, G Holmes, IH Witten
    posted to misc by ramensky on 2008-08-03 15:45:48 as ** along with 4 people and 4 groups irenas hampti Cortel beapen dbk-lab Atopic_and_Seborrhoeic_Dermatitis Skin_Deep Applied_Bimatics
  • Predicting Functional Regulatory Polymorphisms.
    Bioinformatics (Oxford, England) (18 June 2008)
    by Ali Torkamani, Nicholas J J Schork
    posted to rsnps by ramensky on 2008-08-03 15:32:18 as ** along with 2 people jyuh djkt
  • Bioinformatics approaches and resources for single nucleotide polymorphism functional analysis.
    Brief Bioinform, Vol. 6, No. 1. (March 2005), pp. 44-56.
    by S Mooney
    posted to nssnps by ramensky on 2008-08-03 15:24:47 as ** along with 1 person and 2 groups indigoviolet Bioinformatics EisenLab
  • Natural selection on human microRNA binding sites inferred from SNP data.
    Nat Genet (29 October 2006)
    by Kevin Chen, Nikolaus Rajewsky
    posted to rsnps by ramensky on 2008-08-03 15:16:34 as ** along with 9 people and 3 groups jfr tardigrade andersbj mtagaya ealloza plofje Garamonfok heliopais bpcusack Bioinformatics microRNA BioinfoCIPF
  • Toxicogenetics: applications and opportunities.
    Toxicological sciences : an official journal of the Society of Toxicology, Vol. 75, No. 1. (September 2003), pp. 1-6.
    by G Orphanides, I Kimber
    posted to drug_design by ramensky on 2008-08-03 14:27:32 as **
  • Allele-specific gene expression differences in humans.
    Hum Mol Genet, Vol. 13 Spec No 2 (1 October 2004)
    by PR Buckland
    posted to rsnps by ramensky on 2008-08-03 14:26:02 as ** along with 2 people qfwills mimulus_99
  • Influence of human genome polymorphism on gene expression.
    Hum Mol Genet, Vol. 15 Spec No 1 (15 April 2006)
    by T Pastinen, B Ge, TJ Hudson
    posted to rsnps by ramensky on 2008-08-03 14:22:30 as ** along with 5 people qfwills vplagnol qmwwallace jo_davies mimulus_99
  • In Silico Detection of Sequence Variations Modifying Transcriptional Regulation
    PLoS Computational Biology, Vol. 4, No. 1. (1 January 2008), e5.
    by Malin C Andersen, Pär G Engström, Stuart Lithwick, David Arenillas, Per Eriksson, Boris Lenhard, Wyeth W Wasserman, Jacob Odeberg
    posted to rsnps by ramensky on 2008-08-03 14:17:27 as ** along with 2 people jyuh renatomilani
  • Genetic susceptibility to age-related macular degeneration: a paradigm for dissecting complex disease traits.
    Human molecular genetics, Vol. 16 Spec No. 2 (15 October 2007)
    by A Swaroop, KE Branham, W Chen, G Abecasis
    posted to association_studies by ramensky on 2008-07-24 15:55:08 as **
  • Multiple elements jointly determine inhibitor selectivity of cyclic nucleotide phosphodiesterases 4 and 7.
    The Journal of biological chemistry, Vol. 280, No. 35. (2 September 2005), pp. 30949-30955.
    by H Wang, Y Liu, Y Chen, H Robinson, H Ke
    posted to drug_design selective_binding by ramensky on 2008-07-16 17:22:42 as **
  • Proportionally more deleterious genetic variation in European than in African populations
    Nature, Vol. 451, No. 7181. (21 February 2008), pp. 994-997.
    by Kirk E Lohmueller, Amit R Indap, Steffen Schmidt, Adam R Boyko, Ryan D Hernandez, Melissa J Hubisz, John J Sninsky, Thomas J White, Shamil R Sunyaev, Rasmus Nielsen, Andrew G Clark, Carlos D Bustamante
    posted to association_studies nssnps by ramensky on 2008-07-04 14:19:18 as ** along with 3 people and 1 group djkt caseybrown mailund Fasting, food and evolution
  • In silico prediction of the deleterious effect of a mutation: proceed with caution in clinical genetics.
    Clin Chem, Vol. 50, No. 11. (November 2004), pp. 1974-1978.
    by D Tchernitchko, M Goossens, H Wajcman
    posted to nssnps by ramensky on 2008-06-24 00:20:35 as ** along with 1 person chrn
  • Screening for Deleterious Nonsynonymous Single-Nucleotide Polymorphisms in Genes Involved in Steroid Hormone Metabolism and Response
    Cancer Epidemiol Biomarkers Prev, Vol. 14, No. 5. (1 May 2005), pp. 1326-1329.
    by Melissa M Johnson, John Houck, Chu Chen
    posted to nssnps by ramensky on 2008-06-24 00:17:51 as ** along with 1 person Run7
  • Functional characterization of non-synonymous single nucleotide polymorphisms in the gene encoding human multidrug resistance protein 1 (MRP1/ABCC1).
    Pharmacogenet Genomics, Vol. 15, No. 9. (September 2005), pp. 647-657.
    by IJ Létourneau, RG Deeley, SP Cole
    posted to nssnps personalized_medicine by ramensky on 2008-06-23 22:42:29 as ** along with 1 person happy_manatee
  • The structure of common genetic variation in United States populations.
    Am J Hum Genet, Vol. 81, No. 6. (December 2007), pp. 1221-1231.
    by SL Guthery, BA Salisbury, MS Pungliya, JC Stephens, M Bamshad
    posted to association_studies population_genetics by ramensky on 2008-06-19 21:24:13 as ** along with 1 person jyuh
  • Heritability of alternative splicing in the human genome
    Genome Res., Vol. 17, No. 8. (1 August 2007), pp. 1210-1218.
    by Tony Kwan, David Benovoy, Christel Dias, Scott Gurd, David Serre, Harry Zuzan, Tyson A Clark, Anthony Schweitzer, Michelle K Staples, Hui Wang, John E Blume, Thomas J Hudson, Rob Sladek, Jacek Majewski
    posted to alternative_splicing by ramensky on 2008-06-16 21:37:09 as ** along with 8 people and 3 groups dchughes xingxu msomel caseybrown nicholso jo_davies popgen jyuh Bioinformatics G4ID Genetics-of-Gambling
  • Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls
    Nature, Vol. 447, No. 7145. (7 June 2007), pp. 661-678.
    posted to association_studies by ramensky on 2008-06-16 21:31:41 as ** along with 25 people and 3 groups lkolodziej xingxu raistrick jyuh jfr yas hpiwowar larios vplagnol jandot frohike qmwwallace joepickrell massivemayhem Garamonfok PredictER hms jo_davies psique caseybrown mcgannd raiyar wenhui balicea mfm11 Bioinformatics T_lab parkinson's disease references
  • notes Genome-wide survey of allele-specific splicing in humans
    BMC Genomics, Vol. 9 (02 June 2008), 265.
    by Victoria Nembaware, Bukiwe Lupindo, Katherine Schouest, Charles Spillane, Konrad Scheffler, Cathal Seoighe
    posted to alternative_splicing by ramensky on 2008-06-16 21:28:07 as ** along with 1 person jyuh
  • The Molecular Biology Database Collection: 2008 update
    Nucl. Acids Res. (19 November 2007), gkm1037.
    by Michael Y Galperin
    posted to misc by ramensky on 2008-05-27 23:32:56 as ** along with 6 people and 1 group frohike moborg dullhunk jmrivort higueruelo AlexanderPico G-quadruplex
  • SNP-SNP interactions in breast cancer susceptibility.
    BMC cancer, Vol. 6 (2006)
    by VU Onay, L Briollais, JA Knight, E Shi, Y Wang, S Wells, H Li, I Rajendram, IL Andrulis, H Ozcelik
    posted to cancer by ramensky on 2008-05-27 21:46:38 as ** along with 1 person and 1 group Zephyrus Breast Cancer Reading Club
  • Can we rationally design promiscuous drugs?
    Curr Opin Struct Biol (24 January 2006)
    by Andrew L L Hopkins, Jonathan S S Mason, John P P Overington
    posted to drug_design by ramensky on 2008-05-15 00:34:20 as ** along with 6 people and 1 group BragilMassoud apaydin kuhn bicko yongzhao aheilbut TSRI_MGL
  • How many drug targets are there?
    Nature Reviews Drug Discovery, Vol. 5, No. 12., pp. 993-996.
    by John P Overington, Bissan Al-Lazikani, Andrew L Hopkins
    posted to drug_design by ramensky on 2008-05-15 00:33:35 as ** along with 10 people and 1 group BragilMassoud cannin kuhn bicko mingzhi higueruelo srp33 aheilbut gemmalholliday ajaymalik libr
  • A screen of the complete protein kinase gene family identifies diverse patterns of somatic mutations in human breast cancer
    Nature Genetics, Vol. 37, No. 6. (22 May 2005), pp. 590-592.
    by Philip Stephens, Sarah Edkins, Helen Davies, Chris Greenman, Charles Cox, Chris Hunter, Graham Bignell, Jon Teague, Raffaella Smith, Claire Stevens, Sarah O'Meara, Adrian Parker, Patrick Tarpey, Tim Avis, Andy Barthorpe, Lisa Brackenbury, Gemma Buck, Adam Butler, Jody Clements, Jennifer Cole, Ed Dicks, Ken Edwards, Simon Forbes, Matthew Gorton, Kristian Gray, Kelly Halliday, Rachel Harrison, Katy Hills, Jonathon Hinton, David Jones, Vivienne Kosmidou, Ross Laman, Richard Lugg, Andrew Menzies, Janet Perry, Robert Petty, Keiran Raine, Rebecca Shepherd, Alexandra Small, Helen Solomon, Yvonne Stephens, Calli Tofts, Jennifer Varian, Anthony Webb, Sofie West, Sara Widaa, Andrew Yates, Francis Brasseur, Colin S Cooper, Adrienne M Flanagan, Anthony Green, Maggie Knowles, Suet Y Leung, Leendert HJ Looijenga, Bruce Malkowicz, Marco A Pierotti, Bin Teh, Siu T Yuen, Andrew G Nicholson, Sunil Lakhani, Douglas F Easton, Barbara L Weber, Michael R Stratton, Andrew A Futreal, Richard Wooster
    posted to cancer by ramensky on 2008-04-29 20:34:07 as ** along with 2 people cerami frohike
  • Somatic mutations of the protein kinase gene family in human lung cancer.
    Cancer research, Vol. 65, No. 17. (1 September 2005), pp. 7591-7595.
    by H Davies, C Hunter, R Smith, P Stephens, C Greenman, G Bignell, J Teague, A Butler, S Edkins, C Stevens, A Parker, S O'Meara, T Avis, S Barthorpe, L Brackenbury, G Buck, J Clements, J Cole, E Dicks, K Edwards, S Forbes, M Gorton, K Gray, K Halliday, R Harrison, K Hills, J Hinton, D Jones, V Kosmidou, R Laman, R Lugg, A Menzies, J Perry, R Petty, K Raine, R Shepherd, A Small, H Solomon, Y Stephens, C Tofts, J Varian, A Webb, S West, S Widaa, A Yates, F Brasseur, CS Cooper, AM Flanagan, A Green, M Knowles, SY Leung, LH Looijenga, B Malkowicz, MA Pierotti, BT Teh, ST Yuen, SR Lakhani, DF Easton, BL Weber, P Goldstraw, AG Nicholson, R Wooster, MR Stratton, PA Futreal
    posted to cancer by ramensky on 2008-04-29 20:30:53 as ** along with 1 person frohike
  • Cancer: Drivers and passengers
    Nature, Vol. 446, No. 7132. (07 March 2007), pp. 145-146.
    by Daniel A Haber, Jeff Settleman
    posted to cancer by ramensky on 2008-04-29 20:29:38 as ** along with 4 people and 3 groups dchughes ealloza Garamonfok cerami G4ID BioinfoCIPF Genetics-of-Gambling
  • Patterns of somatic mutation in human cancer genomes
    Nature, Vol. 446, No. 7132., pp. 153-158.
    by Christopher Greenman, Philip Stephens, Raffaella Smith, Gillian L Dalgliesh, Christopher Hunter, Graham Bignell, Helen Davies, Jon Teague, Adam Butler, Claire Stevens, Sarah Edkins, Sarah O’meara, Imre Vastrik, Esther E Schmidt, Tim Avis, Syd Barthorpe, Gurpreet Bhamra, Gemma Buck, Bhudipa Choudhury, Jody Clements, Jennifer Cole, Ed Dicks, Simon Forbes, Kris Gray, Kelly Halliday, Rachel Harrison, Katy Hills, Jon Hinton, Andy Jenkinson, David Jones, Andy Menzies, Tatiana Mironenko, Janet Perry, Keiran Raine, Dave Richardson, Rebecca Shepherd, Alexandra Small, Calli Tofts, Jennifer Varian, Tony Webb, Sofie West, Sara Widaa, Andy Yates, Daniel P Cahill, David N Louis, Peter Goldstraw, Andrew G Nicholson, Francis Brasseur, Leendert Looijenga, Barbara L Weber, Yoke-Eng Chiew, Anna Defazio, Mel F Greaves, Anthony R Green, Peter Campbell, Ewan Birney, Douglas F Easton, Georgia Chenevix-Trench, Min-Han Tan, Sok K Khoo, Bin T Teh, Siu T Yuen, Suet Y Leung, Richard Wooster, Andrew P Futreal, Michael R Stratton
    posted to cancer by ramensky on 2008-04-29 20:25:24 as ** along with 10 people kentsis jfr massivemayhem efge Garamonfok daed Petersarkies frohike cerami srp33
  • Comparative lesion sequencing provides insights into tumor evolution
    Proceedings of the National Academy of Sciences, Vol. 105, No. 11. (18 March 2008), pp. 4283-4288.
    by Sian Jones, Wei-Dong Chen, Giovanni Parmigiani, Frank Diehl, Niko Beerenwinkel, Tibor Antal, Arne Traulsen, Martin A Nowak, Christopher Siegel, Victor E Velculescu, Kenneth W Kinzler, Bert Vogelstein, Joseph Willis, Sanford D Markowitz
    posted to cancer by ramensky on 2008-04-22 13:11:20 as ** along with 1 person gwenknight
  • The complete genome of an individual by massively parallel DNA sequencing
    Nature, Vol. 452, No. 7189. (17 April 2008), pp. 872-876.
    by David A Wheeler, Maithreyan Srinivasan, Michael Egholm, Yufeng Shen, Lei Chen, Amy Mcguire, Wen He, Yi-Ju Chen, Vinod Makhijani, Thomas G Roth, Xavier Gomes, Karrie Tartaro, Faheem Niazi, Cynthia L Turcotte, Gerard P Irzyk, James R Lupski, Craig Chinault, Xing-Zhi Song, Yue Liu, Ye Yuan, Lynne Nazareth, Xiang Qin, Donna M Muzny, Marcel Margulies, George M Weinstock, Richard A Gibbs, Jonathan M Rothberg
    posted to nssnps by ramensky on 2008-04-20 15:49:08 as ** along with 13 people and 2 groups jo_davies jfr orzenil dullhunk djkt psique caseybrown melting dbensasson bpb Neeperando Huub_odc jyuh parkinson's disease references microbiology_nijmegen
  • Natural selection of protein structural and functional properties: a SNP perspective
    Genome Biology, Vol. 9, No. 4. (2008)
    by Jinfeng Liu, Yan Zhang, Xingye Lei, Zemin Zhang
    posted to nssnps by ramensky on 2008-04-12 12:56:16 as ** along with 4 people and 1 group operon fernan stajich dandaman Berkeley Mycology
  • Darwinian Evolution Can Follow Only Very Few Mutational Paths to Fitter Proteins
    Science, Vol. 312, No. 5770. (7 April 2006), pp. 111-114.
    by Daniel M Weinreich, Nigel F Delaney, Mark A Depristo, Daniel L Hartl
    posted to adaptation by ramensky on 2008-04-12 12:38:37 as ** along with 14 people and 5 groups stevanspringer barry pansapiens imouthesmp dayjm Einat marcius i41m nirfriedman cmm RowanBarrett Vaquero Ema bpcusack structural_bioinformatics Bioinformatics FAB-lab BioinfoCIPF SGU-CIPF
  • Missense meanderings in sequence space: a biophysical view of protein evolution
    Nature Reviews Genetics, Vol. 6, No. 9. (01 September 2005), pp. 678-687.
    by Mark A Depristo, Daniel M Weinreich, Daniel L Hartl
    posted to adaptation evolution by ramensky on 2008-04-12 12:36:15 as ** along with 3 people rklancer monod bpcusack
  • Experimental Evolution Yields Hundreds of Mutations in a Functional Viral Genome
    Journal of Molecular Evolution, Vol. 57, No. 3. (2003), pp. 241-248.
    by JJ Bull, MR Badgett, D Rokyta, IJ Molineux
    posted to adaptation by ramensky on 2008-04-09 17:54:01 as **
  • Fitness effects of beneficial mutations: the mutational landscape model in experimental evolution
    Current Opinion in Genetics & Development, Vol. In Press, Corrected Proof
    by Andrea J Betancourt, Jonathan P Bollback
    posted to adaptation by ramensky on 2008-04-09 16:50:25 as ** along with 2 people stevanspringer jmeppley
  • Distributions of epistasis in microbes fit predictions from a fitness landscape model
    Nature Genetics, Vol. 39, No. 4. (18 March 2007), pp. 555-560.
    by Guillaume Martin, Santiago F Elena, Thomas Lenormand
    posted to adaptation by ramensky on 2008-04-09 16:48:59 as ** along with 1 person bpcusack
  • Mutational Reversions During Adaptive Protein Evolution
    Mol Biol Evol (7 June 2007), msm118.
    by Mark A Depristo, Daniel L Hartl, Daniel M Weinreich
    posted to adaptation by ramensky on 2008-04-09 16:45:30 as ** along with 2 people cjeans bpcusack
  • Analysis of epistatic interactions and fitness landscapes using a new geometric approach
    BMC Evolutionary Biology, Vol. 7 (13 April 2007), 60.
    by Niko Beerenwinkel, Lior Pachter, Bernd Sturmfels, Santiago F Elena, Richard E Lenski
    posted to cpds by ramensky on 2008-04-09 16:37:34 as ** along with 5 people Ayest msierk elm piaszw pszw
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