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Ключевое слово tiling [69 articles]

Recent papers classified by the tag tiling.
  • Mapping the C. elegans noncoding transcriptome with a whole-genome tiling microarray
    Genome Res. (4 September 2007), gr.6611807.
    by Housheng He, Jie Wang, Tao Liu, Shirley X Liu, Tiantian Li, Yunfei Wang, Zuwei Qian, Haixia Zheng, Xiaopeng Zhu, Tao Wu, Baochen Shi, Wei Deng, Wei Zhou, Geir Skogerbo, Runsheng Chen
    posted to genomics microarray nematode tiling transcriptome by xingxu on 2007-12-27 01:13:23 as ** along with 2 people cabbagezs blobbybirdman
  • A supervised hidden Markov model framework for efficiently segmenting tiling array data in transcriptional and ChIP-chip experiments: systematically incorporating validated biological knowledge.
    Bioinformatics (12 October 2006)
    by Jiang Du, Joel S S Rozowsky, Jan O O Korbel, Zhengdong D D Zhang, Thomas E E Royce, Martin H H Schultz, Michael Snyder, Mark Gerstein
    posted to transcriptome tiling methods bioinformatics by xingxu on 2008-05-06 20:13:09 as ** along with 7 people and 2 groups miguel tuck eckart_bindewald djkt SeungjoonOh blobbybirdman inesdesantiago Bioinformatics UH - Computational Biology
  • Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments.
    Trends Genet, Vol. 21, No. 2. (February 2005), pp. 93-102.
    by JM Johnson, S Edwards, D Shoemaker, EE Schadt
    posted to antisense dark dna genome hybridization intergenic junk matter micro-array region review tiling transcription transcriptome by xico on 2007-07-06 19:10:13 as **** along with 6 people and 3 groups greg briann cassj eoghanharr imouthesmp adepace spliceml EisenLab WetBiology
  • Microarray Blob-Defect Removal Improves Array Analysis.
    Bioinformatics (1 March 2007)
    by Jun S S Song, Kaveh Maghsoudi, Wei Li, Edward Fox, John Quackenbush, X Shirley Liu
    posted to affymetrix microarray software tiling by waszak on 2007-11-13 20:57:22 as ** along with 5 people and 1 group jfr kengg shigepong ghattem caseybrown Plantandetc
  • Getting started in tiling microarray analysis.
    PLoS Comput Biol, Vol. 3, No. 10. (26 October 2007), pp. 1842-1844.
    by XS Liu
    posted to microarray review tiling by waszak on 2008-02-01 15:24:51 as *** along with 4 people cassj jfr cabbagezs yevishere
  • Guidelines for incorporating non-perfectly matched oligonucleotides into target-specific hybridization probes for a DNA microarray
    Nucl. Acids Res., Vol. 32, No. 2. (2 February 2004), pp. 681-690.
    by Inhan Lee, Alan A Dombkowski, Brian D Athey
    posted to statistics tiling by talponer on 2008-04-21 18:43:02 as **
  • BLAT--the BLAST-like alignment tool.
    Genome Res, Vol. 12, No. 4. (April 2002), pp. 656-664.
    by WJ Kent
    posted to tiling sequences by talponer on 2008-05-01 11:35:37 as ** along with 18 people and 1 group bozdagd gpappas operon miguel pcahan1 Ayest indigoviolet mtagaya treangen michC djkt timflutre olympos cjeans wenhan natstreet antonkratz yoanjacquemin EisenLab
  • Improving comparability between microarray probe signals by thermodynamic intensity correction.
    Nucleic Acids Res (2 March 2007)
    by Georg M M Bruun, Rasmus Wernersson, Agnieszka S S Juncker, Hanni Willenbrock, Henrik Bjørn B Nielsen
    posted to microarray statistics tiling by talponer on 2008-04-17 10:29:53 as ** along with 5 people jyuh ghattem GeeSharpMinor niallhaslam waszak
  • Mean and variance of the Gibbs free energy of oligonucleotides in the nearest neighbor model under varying conditions
    Bioinformatics, Vol. 20, No. 17. (22 November 2004), pp. 2928-2933.
    by Sven Rahmann, Christine Grafe
    posted to statistics tiling by talponer on 2008-04-17 14:17:15 as **
  • Relationship between gene expression and observed intensities in DNA microarraysa modeling study
    Nucleic Acids Research, Vol. 34, No. 9. (2006), pp. e70-e70.
    by Held, , Grinstein, , Tu,
    posted to statistics tiling by talponer on 2008-04-17 16:09:18 as ** along with 1 person bertelsen
  • Quantile smoothing of array CGH data
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 1146-1153.
    by HC Eilers, X de Menezes
    posted to microarray tiling by talponer on 2008-03-25 09:50:03 as **
  • Identification of transcribed sequences in Arabidopsis thaliana by using high-resolution genome tiling arrays.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 12. (22 March 2005), pp. 4453-4458.
    by V Stolc, MP Samanta, W Tongprasit, H Sethi, S Liang, DC Nelson, A Hegeman, C Nelson, D Rancour, S Bednarek, EL Ulrich, Q Zhao, RL Wrobel, CS Newman, BG Fox, GN Phillips, JL Markley, MR Sussman
    posted to microarray tiling by talponer on 2008-04-03 09:54:33 as **
  • Global Analysis of Genetic, Epigenetic and Transcriptional Polymorphisms in Arabidopsis thaliana Using Whole Genome Tiling Arrays.
    PLoS Genet, Vol. 4, No. 3. (March 2008)
    by X Zhang, S Shiu, A Cal, JO Borevitz
    posted to microarray tiling by talponer on 2008-04-03 09:51:24 as ** along with 1 person rschulz
  • Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets.
    Proc Natl Acad Sci U S A, Vol. 102, No. 24. (14 June 2005), pp. 8633-8638.
    by S Persson, H Wei, J Milne, GP Page, CR Somerville
    posted to tiling statistics microarray by talponer on 2008-05-12 15:44:27 as ** along with 1 person kengg
  • Modeling of DNA microarray data by using physical properties of hybridization
    Proceedings of the National Academy of Sciences, Vol. 100, No. 13. (24 June 2003), pp. 7575-7580.
    by GA Held, G Grinstein, Y Tu
    posted to statistics tiling by talponer on 2008-04-17 16:30:34 as **
  • Assessing the need for sequence-based normalization in tiling microarray experiments
    Bioinformatics, Vol. 23, No. 8. (15 April 2007), pp. 988-997.
    by Royce, E Thomas, Rozowsky, S Joel, Gerstein, B Mark
    posted to tiling microarray by talponer on 2008-04-25 16:19:08 as ** along with 1 person magusina
  • A model of molecular interactions on short oligonucleotide microarrays.
    Nat Biotechnol, Vol. 21, No. 7. (July 2003), pp. 818-821.
    by L Zhang, MF Miles, KD Aldape
    posted to tiling by talponer on 2008-04-30 10:03:06 as ** along with 2 people bertelsen nicholso
  • A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics.
    Proc Natl Acad Sci U S A, Vol. 95, No. 4. (17 February 1998), pp. 1460-1465.
    by J SantaLucia
    posted to statistics tiling by talponer on 2008-04-17 14:28:24 as ** along with 2 people davidng stsaft
  • A New Genetic Algorithm for Loop Tiling
    Journal of Supercomputing, Vol. 37, No. 3. (September 2006), pp. 249-269.
    by Saeed Parsa, Shahriar Lotfi
    posted to ga tiling by sharshera on 2007-09-04 17:39:30 as **** along with 1 group SCAL
  • Impact of modern memory subsystems on cache optimizations for stencil computations
    (2005), pp. 36-43.
    by Shoaib Kamil, Parry Husbands, Leonid Oliker, John Shalf, Katherine Yelick
    posted to efficacy prefetching stencils tiling by sharshera on 2007-09-04 18:00:01 as *** along with 1 group SCAL
  • Automatic tiling of iterative stencil loops
    ACM Trans. Program. Lang. Syst., Vol. 26, No. 6. (November 2004), pp. 975-1028.
    by Zhiyuan Li, Yonghong Song
    posted to stencils tiling by sharshera on 2007-06-22 20:25:54 as *** along with 1 group SCAL
  • Locating Sequence on FPC Maps and Selecting a Minimal Tiling Path
    Genome Res., Vol. 13, No. 9. (1 September 2003), pp. 2152-2163.
    by Friedrich W Engler, James Hatfield, William Nelson, Carol A Soderlund
    posted to fpc mapping math minimal physical tiling by sbozdag on 2007-12-02 21:00:05 as read
  • A high-resolution map of transcription in the yeast genome
    PNAS, Vol. 103, No. 14. (4 April 2006), pp. 5320-5325.
    by Lior David, Wolfgang Huber, Marina Granovskaia, Joern Toedling, Curtis J Palm, Lee Bofkin, Ted Jones, Ronald W Davis, Lars M Steinmetz
    posted to yeast transcription tiling sgtcnih genomics array by raiyar on 2006-12-28 21:52:06 as read along with 7 people and 2 groups chasmand tuck alexg eckart_bindewald dpollard entropy xingxu EisenLab steinmetzlab
  • Transcript mapping with high-density oligonucleotide tiling arrays
    Bioinformatics, Vol. 22, No. 16. (15 August 2006), pp. 1963-1970.
    by Wolfgang Huber, Joern Toedling, Lars M Steinmetz
    posted to tiling oligo niek microarray by ptrobajo on 2008-06-18 13:45:46 as ** along with 2 people johncumbers jtaylor
  • Tiling Imperfectly-nested Loop Nests
    (2000), pp. 60-60.
    by Nawaaz Ahmed, Nikolay Mateev, Keshav Pingali
    posted to ahmed pingali tiling by nicolasvasilache on 2007-07-04 12:33:20 as *****
  • Global identification of human transcribed sequences with genome tiling arrays.
    Science, Vol. 306, No. 5705. (24 December 2004), pp. 2242-2246.
    by P Bertone, V Stolc, TE Royce, JS Rozowsky, AE Urban, X Zhu, JL Rinn, W Tongprasit, M Samanta, S Weissman, M Gerstein, M Snyder
    posted to human microarray tiling by nickluscombe on 2006-04-03 10:20:18 as read along with 3 people and 2 groups miguel kaspermunch elfar Bioinformatics EBI-regulation
  • Assessing the need for sequence-based normalization in tiling microarray experiments.
    Bioinformatics (25 March 2007)
    by Thomas E E Royce, Joel S S Rozowsky, Mark B B Gerstein
    posted to microarray normalization tiling by mmarchin on 2007-04-02 18:53:33 as **** along with 3 people and 1 group bertelsen jfr nicholso Bioinformatics
  • Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
    Genome Res. (7 February 2008), gr.7080508.
    by David S Johnson, Wei Li, Benjamin D Gordon, Arindam Bhattacharjee, Bo Curry, Jayati Ghosh, Leonardo Brizuela, Jason S Carroll, Myles Brown, Paul Flicek, Christopher M Koch, Ian Dunham, Mark Bieda, Xiaoqin Xu, Peggy J Farnham, Philipp Kapranov, David A Nix, Thomas R Gingeras, Xinmin Zhang, Heather Holster, Nan Jiang, Roland Green, Jun S Song, Scott A Mccuine, Elizabeth Anton, Loan Nguyen, Nathan D Trinklein, Zhen Ye, Keith Ching, David Hawkins, Bing Ren, Peter C Scacheri, Joel Rozowsky, Alexander Karpikov, Ghia Euskirchen, Sherman Weissman, Mark Gerstein, Michael Snyder, Annie Yang, Zarmik Moqtaderi, Heather Hirsch, Hennady P Shulha, Yutao Fu, Zhiping Weng, Kevin Struhl, Richard M Myers, Jason D Lieb, Shirley X Liu
    posted to tiling normalisation hybridisation by magusina on 2008-04-25 12:22:10 as *** along with 10 people and 2 groups gracio stajich lp2 jfr kengg djkt xiaobeizhao cabbagezs idonaldson caseybrown Berkeley Mycology BergmanLab
  • A study of the relationships between oligonucleotide properties and hybridization signal intensities from NimbleGen microarray datasets
    Nucl. Acids Res. (1 April 2008), gkn133.
    by Hairong Wei, Pei F Kuan, Shulan Tian, Chuhu Yang, Jeff Nie, Srikumar Sengupta, Victor Ruotti, Gudrun A Jonsdottir, Sunduz Keles, James A Thomson, Ron Stewart
    posted to tiling normalisation hybridisation by magusina on 2008-04-25 12:20:17 as ***
  • A tiling approach to virus capsid assembly explaining a structural puzzle in virology
    Journal of Theoretical Biology, Vol. 226, No. 4. (21 February 2004), pp. 477-482.
    by R Twarock
    posted to assembly capsid math theory tiling virus by kupopo on 2006-07-03 20:25:15 as ****
  • Classification of capped tubular viral particles in the family of Papovaviridae
    Journal of Physics: Condensed Matter, Vol. 18, No. 14. (2006), pp. S375-S387.
    by T Keef, A Taormina, R Twarock
    posted to capsid math papova theory tiling tube virus by kupopo on 2006-07-03 19:56:49 as ***
  • Crosslinking in viral capsids via tiling theory
    Journal of Theoretical Biology, Vol. 240, No. 3. (7 June 2006), pp. 419-424.
    by R Twarock, RW Hendrix
    posted to capsid crosslink math theory tiling virus by kupopo on 2006-07-03 19:43:20 as ****
  • Mathematical models for tubular structures in the family of Papovaviridae
    Bulletin of Mathematical Biology, Vol. 67, No. 5. (September 2005), pp. 973-987.
    by R Twarock
    posted to capsid math papova theory tiling tube virus by kupopo on 2006-07-03 20:13:53 as ***
  • Assembly models for Papovaviridae based on tiling theory
    Physical Biology, Vol. 2, No. 3. (September 2005), 175.
    by T Keef, A Taormina, R Twarock
    posted to assembly capsid math papova theory tiling virus by kupopo on 2006-07-03 20:10:43 as ****
  • Optimizing graph algorithms for improved cache performance
    Parallel and Distributed Processing Symposium., Proceedings International, IPDPS 2002, Abstracts and CD-ROM (2002), pp. 32-41.
    by Joon-Sang Park, M Penner, VK Prasanna
    posted to algorithm cache graph prims tiling by kbalaji on 2008-01-17 05:03:19 as ** along with 1 person AbnerCYH
  • A comprehensive transcript index of the human genome generated using microarrays and computational approaches.
    Genome Biol, Vol. 5, No. 10. (2004)
    by EE Schadt, SW Edwards, D GuhaThakurta, D Holder, L Ying, V Svetnik, A Leonardson, KW Hart, A Russell, G Li, G Cavet, J Castle, P McDonagh, Z Kan, R Chen, A Kasarskis, M Margarint, RM Caceres, JM Johnson, CD Armour, PW Garrett-Engele, NF Tsinoremas, DD Shoemaker
    posted to array genome human rna tiling by kaspermunch on 2005-11-16 13:07:50 as *** along with 1 person and 1 group jfr Bioinformatics
  • A gene expression map for the euchromatic genome of Drosophila melanogaster.
    Science, Vol. 306, No. 5696. (22 October 2004), pp. 655-660.
    by V Stolc, Z Gauhar, C Mason, G Halasz, MF van Batenburg, SA Rifkin, S Hua, T Herreman, W Tongprasit, PE Barbano, HJ Bussemaker, KP White
    posted to array drosophila genome tiling transcriptome by kaspermunch on 2005-11-16 12:50:22 as read along with 3 people and 2 groups penka meriley caseybrown Bioinformatics Nie
  • Empirical Analysis of Transcriptional Activity in the Arabidopsis Genome
    Science, Vol. 302, No. 5646. (31 October 2003), pp. 842-846.
    by Kayoko Yamada, Jun Lim, Joseph M Dale, Huaming Chen, Paul Shinn, Curtis J Palm, Audrey M Southwick, Hank C Wu, Christopher Kim, Michelle Nguyen, Paul Pham, Rosa Cheuk, George Karlin-Newmann, Shirley X Liu, Bao Lam, Hitomi Sakano, Troy Wu, Guixia Yu, Molly Miranda, Hong L Quach, Matthew Tripp, Charlie H Chang, Jeong M Lee, Mitsue Toriumi, Marie M Chan, Carolyn C Tang, Courtney S Onodera, Justine M Deng, Kenji Akiyama, Yasser Ansari, Takahiro Arakawa, Jenny Banh, Fumika Banno, Leah Bowser, Shelise Brooks, Piero Carninci, Qimin Chao, Nathan Choy, Akiko Enju, Andrew D Goldsmith, Mani Gurjal, Nancy F Hansen, Yoshihide Hayashizaki, Chanda Johnson-Hopson, Vickie W Hsuan, Kei Iida, Meagan Karnes, Shehnaz Khan, Eric Koesema, Junko Ishida, Paul X Jiang, Ted Jones, Jun Kawai, Asako Kamiya, Cristina Meyers, Maiko Nakajima, Mari Narusaka, Motoaki Seki, Tetsuya Sakurai, Masakazu Satou, Racquel Tamse, Maria Vaysberg, Erika K Wallender, Cecilia Wong, Yuki Yamamura, Shiaulou Yuan, Kazuo Shinozaki, Ronald W Davis, Athanasios Theologis, Joseph R Ecker
    posted to arabidopsis genome tiling transcriptome by kaspermunch on 2005-11-16 12:48:26 as read along with 2 people and 1 group sdinka xwbcn Bioinformatics
  • Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.
    Genome Res, Vol. 14, No. 3. (March 2004), pp. 331-342.
    by D Kampa, J Cheng, P Kapranov, M Yamanaka, S Brubaker, S Cawley, J Drenkow, A Piccolboni, S Bekiranov, G Helt, H Tammana, TR Gingeras
    posted to 21 22 array human novel rna tiling by kaspermunch on 2005-11-16 10:41:42 as read along with 1 person and 1 group evaf Bioinformatics
  • Applications of DNA tiling arrays to experimental genome annotation and regulatory pathway discovery
    Chromosome Research, Vol. 13, No. 3. (January 2005), pp. 259-274.
    by Paul Bertone, Mark Gerstein, Michael Snyder
    posted to tiling genome arrays annotation by jwestbrook on 2007-01-23 05:37:19 as **** along with 1 group King_Lab
  • notes Applications of DNA tiling arrays for whole-genome analysis.
    Genomics, Vol. 85, No. 1. (January 2005), pp. 1-15.
    by TC Mockler, S Chan, A Sundaresan, H Chen, SE Jacobsen, JR Ecker
    posted to tiling genome arrays annotation by jwestbrook on 2007-01-23 05:36:03 as **** along with 3 people and 1 group jo_davies mdimon blackm0k King_Lab
  • Programming for parallelism and locality with hierarchically tiled arrays
    (2006), pp. 48-57.
    by Ganesh Bikshandi, Jia Guo, Daniel Hoeflinger, Gheorghe Almasi, Basilio B Fraguela, Mar\ia J Garzarán, David Padua, Christoph von Praun
    posted to array blocking high-performance locality matrix parallel tiling by jsiek on 2007-12-11 23:14:14 as **
  • A Singular Loop Transformation Framework Based on Nonsingular Matrices
    No. 757. (1992), pp. 391-405.
    by Wei Li, Keshav Pingali
    posted to tiling by harshrc on 2007-06-06 13:11:36 as **
  • Scanning polyhedra with DO loops
    SIGPLAN Notices, Vol. 26, No. 7. (April 1991), pp. 39-50.
    by C Ancourt, F Irigoin
    posted to tiling by harshrc on 2007-06-06 13:10:50 as **
  • Tiling Multidimensional Iteration Spaces for Multicomputers
    Journal of Parallel and Distributed Computing, Vol. 16, No. 2. (1992), pp. 108-230.
    by J Ramanujam, P Sadayappan
    posted to tiling by harshrc on 2007-06-06 13:11:56 as **
  • Efficient management of complex elements in physical IC design
    Circuits and Systems, 1990., IEEE International Symposium on (1990), pp. 456-459 vol.1.
    by F Curatelli, M Barzaghi, GM Bisio
    posted to tiling by athulan to the group lmas_green on 2007-07-29 20:43:20 as **
  • A general algorithm for tiling the register level
    (1998), pp. 133-140.
    by M Jim&\#233;nez, JM Llaber&\#237;a, A Fern&\#225;ndez, E Morancho
    posted to memhier tiling by eraman on 2006-10-03 22:28:24 as **
  • Improving locality and parallelism in nested loops
    (1992)
    by Michael E Wolf
    posted to memhier skewing thesis tiling by eraman on 2006-10-03 22:25:00 as **
  • New tiling techniques to improve cache temporal locality
    (1999), pp. 215-228.
    by Yonghong Song, Zhiyuan Li
    posted to memhier tiling by eraman on 2006-10-03 22:23:24 as **
  • Increasing temporal locality with skewing and recursive blocking
    (2001), pp. 43-43.
    by Guohua Jin, John Mellor-Crummey, Robert Fowler
    posted to memhier skewing tiling by eraman on 2006-10-03 22:22:01 as **
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