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gpalidwor's library [169 articles]

Recent papers added to gpalidwor's library.
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  • Retroposition of processed pseudogenes: the impact of RNA stability and translational control
    Trends in Genetics, Vol. 22, No. 2. (February 2006), pp. 69-73.
    by Adam Pavlicek, Andrew J Gentles, Jan Paces, Vaclav Paces, Jerzy Jurka
    posted to no-tag by gpalidwor on 2008-11-24 14:18:20 as ***** along with 2 people and 1 group biomcgary hpaces Marcotte_Lab
  • notes TreeSnatcher: coding trees from images.
    Bioinformatics, Vol. 23, No. 24. (15 December 2007), pp. 3384-3385.
    by T Laubach, A von Haeseler
    posted to no-tag by gpalidwor on 2007-12-17 14:08:38 as *** along with 1 person maximilianh
  • Knockdown of the bovine prion gene PRNP by RNA interference (RNAi) technology
    BMC Biotechnology, Vol. 7 (26 July 2007), 44.
    by Shizuyo Sutou, Miho Kunishi, Toshiyuki Kudo, Pimprapar Wongsrikeao, Makoto Miyagishi, Takeshige Otoi
    posted to no-tag by gpalidwor on 2007-12-14 02:40:39 as **
  • A TATA element is required for tRNA promoter activity and confers TATA-binding protein responsiveness in Drosophila Schneider-2 cells.
    J Biol Chem, Vol. 274, No. 16. (16 April 1999), pp. 11369-11375.
    by A Trivedi, LS Young, C Ouyang, DL Johnson, KU Sprague
    posted to no-tag by gpalidwor on 2007-12-14 02:37:23 as **
  • Transcription factor TFIIIB and transcription by RNA polymerase III.
    Biochem Soc Trans, Vol. 34, No. Pt 6. (December 2006), pp. 1082-1087.
    by GA Kassavetis, EP Geiduschek
    posted to no-tag by gpalidwor on 2007-12-14 02:31:57 as **
  • A composite upstream sequence motif potentiates tRNA gene transcription in yeast.
    J Mol Biol, Vol. 333, No. 1. (10 October 2003), pp. 1-20.
    by S Giuliodori, R Percudani, P Braglia, R Ferrari, E Guffanti, S Ottonello, G Dieci
    posted to no-tag by gpalidwor on 2007-12-14 02:28:33 as **
  • Analysis of transcription factors binding to the human 7SL RNA gene promoter.
    Biochem Cell Biol, Vol. 77, No. 5. (1999), pp. 431-438.
    by J Müller, BJ Benecke
    posted to no-tag by gpalidwor on 2007-12-14 02:19:36 as **
  • Genomic organization, chromosomal mapping and promoter analysis of the mouse selenocysteine tRNA gene transcription-activating factor (mStaf) gene.
    Biochem J, Vol. 346 Pt 1 (15 February 2000), pp. 45-51.
    by K Adachi, M Katsuyama, S Song, T Oka
    posted to no-tag by gpalidwor on 2007-12-14 02:18:01 as **
  • TFIIIC-independent in vitro transcription of yeast tRNA genes.
    J Mol Biol, Vol. 299, No. 3. (9 June 2000), pp. 601-613.
    by G Dieci, R Percudani, S Giuliodori, L Bottarelli, S Ottonello
    posted to no-tag by gpalidwor on 2007-12-14 02:12:29 as **
  • Modulation of differential transcription of tRNA genes through chromatin organization.
    Biochem J, Vol. 391, No. Pt 2. (15 October 2005), pp. 371-381.
    by A Parthasarthy, KP Gopinathan
    posted to no-tag by gpalidwor on 2007-12-14 02:04:24 as **
  • Transcriptional activation of a moderately expressed tRNA gene by a positioned nucleosome.
    Biochem J, Vol. 396, No. 3. (15 June 2006), pp. 439-447.
    by A Parthasarthy, KP Gopinathan
    posted to no-tag by gpalidwor on 2007-12-14 02:02:50 as **
  • Transcription of individual tRNA1Gly genes from within a multigene family is regulated by transcription factor TFIIIB.
    FEBS J, Vol. 272, No. 20. (October 2005), pp. 5191-5205.
    by A Parthasarthy, KP Gopinathan
    posted to no-tag by gpalidwor on 2007-12-14 02:00:18 as **
  • Folding of noncoding RNAs during transcription facilitated by pausing-induced nonnative structures
    Proceedings of the National Academy of Sciences, Vol. 104, No. 46. (13 November 2007), pp. 17995-18000.
    by Terrence N Wong, Tobin R Sosnick, Tao Pan
    posted to no-tag by gpalidwor on 2007-12-12 02:08:43 as ** along with 2 people stk RedmondSmyth
  • Codon bias uncovers splicing regulatory sequences
    posted to no-tag by gpalidwor on 2007-12-12 01:56:49 as **
  • The Global Landscape of Sequence Diversity
    Genome Biology, Vol. 8 (08 November 2007), R238.
    by Jose M Peregrin-Alvarez, John Parkinson
    posted to proteinclusters by gpalidwor on 2007-12-06 17:55:32 as ** along with 4 people skhadar cjeans hpaces ale
  • Indications that "codon boundaries" are physico-chemically defined and that protein-folding information is contained in the redundant exon bases
    Theoretical Biology and Medical Modelling, Vol. 3 (07 August 2006), 28.
    by Jan C Biro
    posted to slowcodon by gpalidwor on 2007-11-07 15:21:15 as ***
  • Protein secondary structural types are differentially coded on messenger RNA
    Protein Sci, Vol. 5, No. 10. (1 October 1996), pp. 1973-1983.
    by TA Thanaraj, P Argos
    posted to slowcodon by gpalidwor on 2007-11-07 15:18:54 as *** along with 2 people raylim msafi
  • Artificial intelligence techniques for bioinformatics.
    Appl Bioinformatics, Vol. 1, No. 4. (2002), pp. 191-222.
    by A Narayanan, EC Keedwell, B Olsson
    posted to no-tag by gpalidwor on 2007-10-05 21:55:38 as **
  • Feature selection for splice site prediction: a new method using EDA-based feature ranking.
    BMC Bioinformatics, Vol. 5 (21 May 2004)
    by Y Saeys, S Degroeve, D Aeyels, P Rouzé, Y Van de Peer
    posted to geneticalgorithms by gpalidwor on 2007-10-05 21:53:52 as ** along with 1 person kallberg
  • Differential evolution for protein crystallographic optimizations
    Acta Crystallographica Section D: Biological Crystallography, Vol. 60, No. 1. (01 December 2004), pp. 2276-2279.
    by Mcree,
    posted to geneticalgorithms by gpalidwor on 2007-10-05 21:13:16 as **
  • Evolutionary method for the assembly of rigid protein fragments.
    J Comput Chem, Vol. 26, No. 2. (30 January 2005), pp. 131-141.
    by D De Sancho, L Prieto, AM Rubio, A Rey
    posted to geneticalgorithms by gpalidwor on 2007-10-05 21:10:53 as **
  • Making sense of the metabolome using evolutionary computation: seeing the wood with the trees.
    J Exp Bot, Vol. 56, No. 410. (January 2005), pp. 245-254.
    by R Goodacre
    posted to geneticalgorithms by gpalidwor on 2007-10-05 21:10:11 as ** along with 3 people and 2 groups irenas devakiram karthikram dbk-lab Neoscientists
  • Genetic algorithms applied to multi-class clustering for gene expression data.
    Genomics Proteomics Bioinformatics, Vol. 1, No. 4. (November 2003), pp. 279-287.
    by H Pan, J Zhu, D Han
    posted to geneticalgorithms by gpalidwor on 2007-10-05 21:07:18 as **
  • Structural Search Spaces and Genetic Operators
    Evolutionary Computation, Vol. 12, No. 4. (2004), pp. 461-493.
    by Jonathan E Rowe, Michael D Vose, Alden H Wright
    posted to geneticalgorithms by gpalidwor on 2007-10-04 20:14:09 as ** along with 2 people kekib dcoffin
  • Genetic algorithm for large-scale maximum parsimony phylogenetic analysis of proteins.
    Biochim Biophys Acta, Vol. 1725, No. 1. (30 August 2005), pp. 19-29.
    by T Hill, A Lundgren, R Fredriksson, HB Schiöth
    posted to geneticalgorithms by gpalidwor on 2007-10-04 20:12:24 as **
  • Comparative analysis of algorithms for identifying amplifications and deletions in array CGH data.
    Bioinformatics (4 August 2005)
    by Weil R R Lai, Mark D D Johnson, Raju Kucherlapati, Peter J J Park
    posted to geneticalgorithms by gpalidwor on 2007-10-04 20:06:41 as ** along with 5 people and 1 group pcahan1 rdiaz ma_ko OscarRueda jackjackjjj Bioinformatics
  • Gene selection based on multi-class support vector machines and genetic algorithms.
    Genet Mol Res, Vol. 4, No. 3. (2005), pp. 599-607.
    by BF Souza, AP Carvalho
    posted to geneticalgorithms by gpalidwor on 2007-10-04 20:02:51 as **
  • Different papillomaviruses have different repertoires of transcription factor binding sites: convergence and divergence in the upstream regulatory region.
    BMC Evol Biol, Vol. 6 (2006)
    by S García-Vallvé, JR Iglesias-Rozas, A Alonso, IG Bravo
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:37:21 as **
  • Genetic algorithm learning as a robust approach to RNA editing site prediction.
    BMC Bioinformatics, Vol. 7 (2006)
    by J Thompson, S Gopal
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:36:33 as **
  • Searching for biomarkers of heart failure in the mass spectra of blood plasma.
    Proteomics, Vol. 6, No. 22. (November 2006), pp. 5903-5914.
    by R Willingale, DJ Jones, JH Lamb, P Quinn, PB Farmer, LL Ng
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:29:09 as **
  • In silico panning for a non-competitive peptide inhibitor
    BMC Bioinformatics, Vol. 8 (12 January 2007), 11.
    by Yukiko Yagi, Kotaro Terada, Takahisa Noma, Kazunori Ikebukuro, Koji Sode
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:22:02 as **
  • Finding the best ridge regression subset by genetic algorithms: applications to multilocus quantitative trait mapping.
    Conf Proc IEEE Eng Med Biol Soc, Vol. 4 (2004), pp. 2793-2796.
    by B Zhang, S Horvath
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:20:40 as **
  • Bridging the gap in RNA structure prediction.
    Curr Opin Struct Biol, Vol. 17, No. 2. (April 2007), pp. 157-165.
    by BA Shapiro, YG Yingling, W Kasprzak, E Bindewald
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:19:18 as ** along with 3 people puranjoy_b debatebob physics
  • Primer design for Whole Genome Amplification using genetic algorithms.
    In Silico Biol, Vol. 6, No. 6. (2006), pp. 505-514.
    by AE Png, KW Choo, CI Lee, SH Leong, OL Kon
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:18:06 as **
  • An evolving method for learning HMM Structure: prediction of protein secondary structure
    BMC Bioinformatics, Vol. 8 (21 September 2007), 357.
    by Kyoung-Jae Won, Thomas Hamelryck, Adam Prugel-Bennett, Anders Krogh
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:17:26 as **
  • GAVis: a Tool for Visualization and Control of Genetic Algorithms for -omic Data Analysis.
    Conf Proc IEEE Eng Med Biol Soc, Vol. 3 (2005), pp. 2855-2858.
    by T Stokes, J Phan, W Feng, G Tuteja, M Wang
    posted to geneticalgorithms by gpalidwor on 2007-10-03 21:16:06 as **
  • Human RNase P: a tRNA-processing enzyme and transcription factor.
    Nucleic Acids Res, Vol. 35, No. 11. (2007), pp. 3519-3524.
    by N Jarrous, R Reiner
    posted to no-tag by gpalidwor on 2007-08-22 17:05:21 as **
  • An Introduction to Support Vector Machines | BioinformaticsOnline
    posted to no-tag by gpalidwor on 2007-07-17 20:37:57 as **
  • Intronic microRNA precursors that bypass Drosha processing
    Nature (24 June 2007)
    by Graham J Ruby, Calvin H Jan, David P Bartel
    posted to no-tag by gpalidwor on 2007-07-06 18:29:49 as ** along with 8 people and 5 groups GustavoLacerda tharris dpollard andersbj stajich Garamonfok ale tolot27 C. elegans / WormBase Bioinformatics EisenLab microRNA Berkeley Mycology
  • A comprehensive evaluation of SAM, the SAM R-package and a simple modification to improve its performance
    BMC Bioinformatics, Vol. 8 (29 June 2007), 230.
    by Shunpu Zhang
    posted to no-tag by gpalidwor on 2007-07-05 15:06:49 as ** along with 5 people jfr shigepong ghattem GeeSharpMinor renatomilani
  • Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation.
    Proc Natl Acad Sci U S A (25 June 2007)
    by Jennifer M M Kavran, Sarath Gundllapalli, Patrick O'donoghue, Markus Englert, Dieter Söll, Thomas A A Steitz
    posted to no-tag by gpalidwor on 2007-06-29 00:01:37 as **
  • Interpretation of multiple probe sets mapping to the same gene in Affymetrix GeneChips
    BMC Bioinformatics, Vol. 8 (15 January 2007), 13.
    by Maria A Stalteri, Andrew P Harrison
    posted to no-tag by gpalidwor on 2007-06-27 21:49:31 as ** along with 7 people guhjy jfr hpiwowar frohike ghattem bertelsen heliopais
  • Improved precision and accuracy for microarrays using updated probe set definitions
    BMC Bioinformatics, Vol. 8 (08 February 2007), 48.
    by Rickard Sandberg, Ola Larsson
    posted to no-tag by gpalidwor on 2007-06-27 21:49:15 as ** along with 5 people jfr shigepong ghattem heliopais bertelsen
  • Explaining differences in saturation levels for Affymetrix GeneChip(R) arrays.
    Nucleic Acids Res (12 June 2007)
    by Dmitriy Skvortsov, Diana Abdueva, Christina Curtis, Betty Schaub, Simon Tavaré
    posted to no-tag by gpalidwor on 2007-06-27 21:26:09 as ** along with 6 people jfr sebastien_vigneau ghattem waszak ptrobajo bertelsen
  • Isochore patterns and gene distributions in fish genomes.
    Genomics (20 June 2007)
    by Maria Costantini, Fabio Auletta, Giorgio Bernardi
    posted to no-tag by gpalidwor on 2007-06-27 21:22:57 as **
  • Genome multiplication as adaptation to tissue survival: evidence from gene expression in mammalian heart and liver.
    Genomics, Vol. 89, No. 1. (January 2007), pp. 70-80.
    by OV Anatskaya, AE Vinogradov
    posted to no-tag by gpalidwor on 2007-06-27 21:22:51 as **
  • Combining experiments with multi-cell agent-based modeling to study biological tissue patterning.
    Brief Bioinform (21 June 2007)
    by Bryan C C Thorne, Alexander M M Bailey, Shayn M M Peirce
    posted to no-tag by gpalidwor on 2007-06-27 21:22:26 as **
  • Tissue-specific transcriptional regulation has diverged significantly between human and mouse
    Nature Genetics, Vol. 39, No. 6. (21 May 2007), pp. 730-732.
    by Duncan T Odom, Robin D Dowell, Elizabeth S Jacobsen, William Gordon, Timothy W Danford, Kenzie D Macisaac, Alexander P Rolfe, Caitlin M Conboy, David K Gifford, Ernest Fraenkel
    posted to no-tag by gpalidwor on 2007-06-27 21:22:01 as ** along with 10 people and 4 groups dpollard dchughes cwbrown djkt cjeans maximilianh fpattyn caseybrown yevishere gdb EisenLab G4ID Genetics-of-Gambling cis-regulatory-evolution
  • An environmental signature for 323 microbial genomes based on codon adaptation indices
    Genome Biology, Vol. 7 (07 December 2006), R114.
    by Hanni Willenbrock, Carsten Friis, Agnieszka S Juncker, David W Ussery
    posted to no-tag by gpalidwor on 2007-06-27 21:21:43 as ** along with 3 people Retchless aswin marenzelleria
  • Celsius: a community resource for Affymetrix microarray data
    Genome Biology, Vol. 8 (14 June 2007), R112.
    by Allen Day, Marc RJ Carlson, Jun Dong, Brian D O'Connor, Stanley F Nelson
    posted to no-tag by gpalidwor on 2007-06-27 21:20:45 as ** along with 4 people jeremymiller jfr ghattem orzenil
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