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タグ: resequencing [34 articles]

Recent papers classified by the tag resequencing.
  • Bioinformatics challenges of new sequencing technology
    Trends in Genetics, Vol. In Press, Corrected Proof
    by Mihai Pop, Steven L Salzberg
    posted to 454 resequencing short-reads solexa solid by urgi on 2008-04-03 08:57:01 as ** along with 13 people giovenko jmeppley dchughes djkt GustavoLacerda niallhaslam Neeperando jfr tharris mariakmejia caseybrown yoonk druvus
  • Broad-spectrum respiratory tract pathogen identification using resequencing DNA microarrays
    Genome Res., Vol. 16, No. 4. (1 April 2006), pp. 527-535.
    by Baochuan Lin, Zheng Wang, Gary J Vora, Jennifer A Thornton, Joel M Schnur, Dzung C Thach, Kate M Blaney, Adam G Ligler, Anthony P Malanoski, Jose Santiago, Elizabeth A Walter, Brian K Agan, David Metzgar, Donald Seto, Luke T Daum, Russell Kruzelock, Robb K Rowley, Eric H Hanson, Clark Tibbetts, David A Stenger
    posted to resequencing u01 by olympos on 2008-07-29 22:21:29 as **
  • A semi-rational design strategy of directed evolution combined with chemical synthesis of DNA sequences.
    Biol Chem, Vol. 388, No. 12. (December 2007), pp. 1291-1300.
    by AS Xiong, RH Peng, J Zhuang, JG Liu, F Gao, F Xu, B Cai, QH Yao
    posted to design microarray oligonucleotide resequencing resistance sequencing by niallhaslam on 2008-02-14 10:45:34 as **
  • An analysis of the feasibility of short read sequencing
    Nucleic Acids Research, Vol. 33, No. 19. (2005), pp. e171-e171.
    by Nava Whiteford, Niall Haslam, Gerald Weber, Adam Prugel-Bennett, Jonathan W Essex, Peter L Roach, Mark Bradley, Cameron Neylon
    posted to reassembly resequencing sequencing by niallhaslam on 2008-08-01 14:27:29 as read along with 4 people dullhunk nedwards Neeperando CameronNeylon
  • Community structure and metabolism through reconstruction of microbial genomes from the environment.
    Nature, Vol. 428, No. 6978. (4 March 2004), pp. 37-43.
    by GW Tyson, J Chapman, P Hugenholtz, EE Allen, RJ Ram, PM Richardson, VV Solovyev, EM Rubin, DS Rokhsar, JF Banfield
    posted to reassesmbly resequencing by niallhaslam on 2007-10-29 11:38:19 as **** along with 4 people bpb bluto wenhan mcox
  • METAGENOMICS: DNA SEQUENCING OF ENVIRONMENTAL SAMPLES
    Nat Rev Genet, Vol. 6, No. 11. (November 2005), pp. 805-814.
    by Susannah G Tringe, Edward M Rubin
    posted to reassesmbly resequencing sequencing by niallhaslam on 2007-10-29 09:55:51 as ***** along with 1 person jmeppley
  • Community structure and metabolism through reconstruction of microbial genomes from the environment
    Nature, Vol. 428, No. 6978. (4 March 2004), pp. 37-43.
    by Gene W Tyson, Jarrod Chapman, Philip Hugenholtz, Eric E Allen, Rachna J Ram, Paul M Richardson, Victor V Solovyev, Edward M Rubin, Daniel S Rokhsar, Jillian F Banfield
    posted to reassesmbly resequencing by niallhaslam on 2007-10-29 11:40:37 as **** along with 7 people and 2 groups balajis eweaver michC mabedin azazello beatrizfernandez rvgomes Microbial-Ecology MBLAB
  • SOAP: short oligonucleotide alignment program.
    Bioinformatics (28 January 2008)
    by Ruiqiang Li, Yingrui Li, Karsten Kristiansen, Jun Wang
    posted to alignment resequencing sequence sequence-alignment by niallhaslam on 2008-02-14 10:46:54 as **** along with 8 people jyuh ghattem GustavoLacerda mdimon caseybrown urgi bozdagd waszak
  • The genome sequence of the malaria mosquito Anopheles gambiae.
    Science, Vol. 298, No. 5591. (4 October 2002), pp. 129-149.
    by RA Holt, GM Subramanian, A Halpern, GG Sutton, R Charlab, DR Nusskern, P Wincker, AG Clark, JM Ribeiro, R Wides, SL Salzberg, B Loftus, M Yandell, WH Majoros, DB Rusch, Z Lai, CL Kraft, JF Abril, V Anthouard, P Arensburger, PW Atkinson, H Baden, V de Berardinis, D Baldwin, V Benes, J Biedler, C Blass, R Bolanos, D Boscus, M Barnstead, S Cai, A Center, K Chaturverdi, GK Christophides, MA Chrystal, M Clamp, A Cravchik, V Curwen, A Dana, A Delcher, I Dew, CA Evans, M Flanigan, A Grundschober-Freimoser, L Friedli, Z Gu, P Guan, R Guigo, ME Hillenmeyer, SL Hladun, JR Hogan, YS Hong, J Hoover, O Jaillon, Z Ke, C Kodira, E Kokoza, A Koutsos, I Letunic, A Levitsky, Y Liang, JJ Lin, NF Lobo, JR Lopez, JA Malek, TC McIntosh, S Meister, J Miller, C Mobarry, E Mongin, SD Murphy, DA O'Brochta, C Pfannkoch, R Qi, MA Regier, K Remington, H Shao, MV Sharakhova, CD Sitter, J Shetty, TJ Smith, R Strong, J Sun, D Thomasova, LQ Ton, P Topalis, Z Tu, MF Unger, B Walenz, A Wang, J Wang, M Wang, X Wang, KJ Woodford, JR Wortman, M Wu, A Yao, EM Zdobnov, H Zhang, Q Zhao, S Zhao, SC Zhu, I Zhimulev, M Coluzzi, A della Torre, CW Roth, C Louis, F Kalush, RJ Mural, EW Myers, MD Adams, HO Smith, S Broder, MJ Gardner, CM Fraser, E Birney, P Bork, PT Brey, JC Venter, J Weissenbach, FC Kafatos, FH Collins, SL Hoffman
    posted to reassesmbly resequencing by niallhaslam on 2007-10-29 11:40:55 as *** along with 7 people and 4 groups sdinka jwortman jmeppley marcius meister1975 stajich Neeperando BioinfoCIPF SGU-CIPF Berkeley Mycology Notre Dame Bioinformatics
  • A genotype calling algorithm for the Illumina BeadArray platform
    Bioinformatics, Vol. 23, No. 20. (15 October 2007), pp. 2741-2746.
    by Yik Y Teo, Michael Inouye, Kerrin S Small, Rhian Gwilliam, Panagiotis Deloukas, Dominic P Kwiatkowski, Taane G Clark
    posted to illumina resequencing sequencing short-read signal-intensity by niallhaslam on 2007-11-12 09:57:22 as *** along with 2 people flexer debasis
  • Primer design for multiplexed genotyping.
    Methods Mol Biol, Vol. 402 (2007), pp. 269-286.
    by L Kaderali
    posted to microarray oligonucleotide primer-design resequencing sequencing design by niallhaslam on 2007-10-25 09:17:10 as ****
  • A bioinformatic filter for improved base-call accuracy and polymorphism detection using the Affymetrix GeneChip(R) whole-genome resequencing platform.
    Nucleic Acids Res (15 November 2007)
    by Gagan A A Pandya, Michael H H Holmes, Sirisha Sunkara, Andrew Sparks, Yun Bai, Kathleen Verratti, Kelly Saeed, Pratap Venepally, Behnam Jarrahi, Robert D D Fleischmann, Scott N N Peterson
    posted to base-calling design microarray resequencing by niallhaslam on 2007-12-03 10:17:30 as *** along with 1 person giovanni
  • Mining complex genotypic features for predicting HIV-1 drug resistance
    Bioinformatics (13 August 2007), btm353.
    by Hiroto Saigo, Takeaki Uno, Koji Tsuda
    posted to oligonuceleotide resequencing resistance by niallhaslam on 2007-09-18 10:14:30 as ** along with 1 person farhat
  • High throughput genetic analysis of congenital myasthenic syndromes using resequencing microarrays.
    PLoS ONE, Vol. 2, No. 9. (2007)
    by L Denning, JA Anderson, R Davis, JP Gregg, J Kuzdenyi, RA Maselli
    posted to microarray resequencing by niallhaslam on 2007-10-17 08:50:15 as ** along with 1 person giovanni
  • Predicting failure rate of PCR in large genomes
    Nucl. Acids Res. (20 May 2008), gkn290.
    by Reidar Andreson, Tonu Mols, Maido Remm
    posted to microarray pcr primer-design resequencing sequencing by niallhaslam on 2008-06-24 10:41:26 as *** along with 3 people wisdom_love balicea jyuh
  • Computability of Models for Sequence Assembly
    Algorithms in Bioinformatics (2007), pp. 289-301.
    by Paul Medvedev, Konstantinos Georgiou, Gene Myers, Michael Brudno
    posted to reassembly resequencing by niallhaslam on 2007-11-22 09:57:01 as read
  • DNA reference alignment benchmarks based on tertiary structure of encoded proteins
    Bioinformatics, Vol. 23, No. 19. (1 October 2007), pp. 2648-2649.
    by Hyrum Carroll, Wesley Beckstead, Timothy O'Connor, Mark Ebbert, Mark Clement, Quinn Snell, David Mcclellan
    posted to benchmarking reassembly resequencing by niallhaslam on 2007-11-12 10:00:40 as ***
  • Microarray-based genomic selection for high-throughput resequencing.
    Nat Methods (14 October 2007)
    by David TT Okou, Karyn, Christina Middle, David JJ Cutler, Thomas JJ Albert, Michael EE Zwick
    posted to microarray resequencing by niallhaslam on 2007-10-17 08:48:59 as *** along with 4 people jyuh jackjackjjj jo_davies caseybrown
  • Interspecies hybridization on DNA resequencing microarrays: efficiency of sequence recovery and accuracy of SNP detection in human, ape, and codfish mitochondrial DNA genomes on a human-specific MitoChip.
    BMC Genomics, Vol. 8, No. 1. (25 September 2007)
    by Sarah M Flynn, Steven M Carr
    posted to hybridisation microarray resequencing by niallhaslam on 2007-10-17 08:49:31 as *** along with 1 person jyuh
  • Characterization of Mismatch and High-signal Intensity Probes Associated with Affymetrix Genechips.
    Bioinformatics (6 June 2007)
    by Yonghong Wang, Ze-Hong H Miao, Yves Pommier, Ernest S S Kawasaki, Audrey Player
    posted to hybridisation melting microarray oligonucleotide resequencing sequencing signal-intensity by niallhaslam on 2007-09-11 11:17:16 as ***** along with 2 people ghattem bertelsen
  • The impact of next-generation sequencing technology on genetics
    Trends in Genetics, Vol. In Press, Corrected Proof
    by Elaine R Mardis
    posted to assembly resequencing sequencing by niallhaslam on 2008-02-13 12:35:36 as ***** along with 10 people and 2 groups jyuh dchughes djkt urgi zerojinx hpaces jlgreen cybaer1 giovenko druvus Green Lab iSEEM
  • DNA sequencing: bench to bedside and beyond.
    Nucleic Acids Res (12 September 2007)
    by Clyde A A Hutchison
    posted to resequencing review by niallhaslam on 2007-11-08 10:24:40 as *** along with 5 people jyuh dullhunk hpaces rschulz caseybrown
  • DNA bar coding and pyrosequencing to identify rare HIV drug resistance mutations.
    Nucleic Acids Res, Vol. 35, No. 13. (2007)
    by C Hoffmann, N Minkah, J Leipzig, G Wang, MQ Arens, P Tebas, FD Bushman
    posted to pyrosequencing resequencing by niallhaslam on 2007-08-21 13:03:12 as ***
  • SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing.
    Genome Res, Vol. 17, No. 11. (November 2007), pp. 1697-1706.
    by Juliane C C Dohm, Claudio Lottaz, Tatiana Borodina, Heinz Himmelbauer
    posted to reassembly resequencing short-read by niallhaslam on 2007-11-06 10:00:18 as ***** along with 8 people and 1 group timflutre stajich ghattem azazello GustavoLacerda flexer jwhitney iris42 Berkeley Mycology
  • Short pyrosequencing reads suffice for accurate microbial community analysis
    Nucl. Acids Res., Vol. 35, No. 18. (25 September 2007), e120.
    by Zongzhi Liu, Catherine Lozupone, Micah Hamady, Frederic D Bushman, Rob Knight
    posted to pyrosequencing resequencing by niallhaslam on 2007-11-08 10:23:34 as *** along with 3 people and 2 groups vrich jlgreen djkt Green Lab iSEEM
  • Genotypic resistance testing in HIV by arrayed primer extension.
    Anal Bioanal Chem (18 January 2008)
    by Michaela Schanné, Jochen Bodem, Aslihan Gerhold-Ay, Anette Jacob, Kurt Fellenberg, Hans-Georg G Kräusslich, Jörg D Hoheisel
    posted to genotyping microarray primer-design probe-design probe-selection resequencing by niallhaslam on 2008-04-01 10:33:24 as *****
  • Optimal Probe Length Varies for Targets with High Sequence Variation: Implications for Probe Library Design for Resequencing Highly Variable Genes
    PLoS ONE, Vol. 3, No. 6. (18 June 2008), e2500.
    by Niall J Haslam, Nava E Whiteford, Gerald Weber, Adam Prügel-Bennett, Jonathan W Essex, Cameron Neylon
    posted to design dna resequencing sequence sequencing thermodynamics by niallhaslam on 2008-06-19 10:06:11 as read along with 1 person CameronNeylon
  • Finding the Needles in the Metagenome Haystack
    Microbial Ecology
    by George A Kowalchuk, Arjen GCL Speksnijder, Kun Zhang, Robert M Goodman, Johannes A van Veen
    posted to reassesmbly resequencing by niallhaslam on 2007-10-29 11:45:31 as *** along with 5 people Yanno jmeppley bluto wenhan dayjm
  • Microarray-based DNA resequencing using 3' blocked primers.
    Anal Biochem (4 November 2007)
    by Jakub Sram, Steve S S Sommer, Qiang Liu
    posted to design microarray oligonucleotide resequencing by niallhaslam on 2007-12-03 10:17:56 as **** along with 1 person jyuh
  • Optimal pooling for genome re-sequencing with ultra-high-throughput short-read technologies
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i32-40.
    by Iman Hajirasouliha, Fereydoun Hormozdiari, Cenk S Sahinalp, Inanc Birol
    posted to assembly read resequencing short by Neeperando on 2008-06-27 14:50:11 as ** along with 1 person reyez
  • New developments in high-throughput resequencing and variation detection using high density microarrays.
    Human mutation, Vol. 19, No. 4. (April 2002), pp. 402-409.
    by JA Warrington, NA Shah, X Chen, M Janis, C Liu, S Kondapalli, V Reyes, MP Savage, Z Zhang, R Watts, M DeGuzman, A Berno, J Snyder, J Baid
    posted to resequencing by giovanni on 2008-04-03 19:06:59 as **
  • Whole mitochondrial genome screening in maternally inherited non-syndromic hearing impairment using a microarray resequencing mitochondrial DNA chip
    European Journal of Human Genetics, Vol. aop, No. current.
    by Marianne Lévêque, Sandrine Marlin, Laurence Jonard, Vincent Procaccio, Pascal Reynier, Patrizia Amati-Bonneau, Sylvain Baulande, Denis Pierron, Didier Lacombe, Françoise Duriez, Christine Francannet, Thierry Mom, Hubert Journel, Hélène Catros, Valérie Drouin-Garraud, Marie-Françoise Obstoy, Hélène Dollfus, Marie-Madeleine Eliot, Laurence Faivre, Christian Duvillard, Remy Couderc, Eréa-Noël Garabedian, Christine Petit, Delphine Feldmann, Françoise Denoyelle
    posted to resequencing by giovanni on 2008-04-03 19:02:22 as **
  • Genome-wide in situ exon capture for selective resequencing.
    Nat Genet (4 November 2007)
    by Emily Hodges, Zhenyu Xuan, Vivekanand Balija, Melissa Kramer, Michael N N Molla, Steven W W Smith, Christina M M Middle, Matthew J J Rodesch, Thomas J J Albert, Gregory J J Hannon, W Richard R McCombie
    posted to resequencing toprint by giovanni on 2007-11-09 15:06:14 as ** along with 2 people jo_davies jyuh
  • Molecular Characterization of Neisseria meningitidis Isolates Using a Resequencing DNA Microarray.
    The Journal of molecular diagnostics : JMD (27 March 2008)
    by Caroline E E Corless, Edward Kaczmarski, Ray Borrow, Malcolm Guiver
    posted to resequencing by giovanni on 2008-04-03 19:00:59 as **
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