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Neeperando library [93 articles]

最近 Neeperando さんのライブラリ .
  • Construction of high-resolution comparative maps in mammals using BAC-end sequences.
    Methods in molecular biology (Clifton, N.J.), Vol. 422 (2008), pp. 79-90.
    by DM Larkin, HA Lewin
    posted to map comparative by Neeperando on 2008-07-24 18:12:13 as ****
  • Amniote phylogenomics: testing evolutionary hypotheses with BAC library scanning and targeted clone analysis of large-scale DNA sequences from reptiles.
    Methods in molecular biology (Clifton, N.J.), Vol. 422 (2008), pp. 91-117.
    by AM Shedlock, DE Janes, SV Edwards
    posted to matepair comparative analysis by Neeperando on 2008-07-24 18:11:32 as ****
  • Real-Time DNA Sequencing Using Detection of Pyrophosphate Release
    Analytical Biochemistry, Vol. 242, No. 1. (1 November 1996), pp. 84-89.
    by Mostafa Ronaghi, Samer Karamohamed, Bertil Pettersson, Mathias Uhlén, Pål Nyrén
    posted to short sequencing read pyrosequencing by Neeperando on 2008-07-17 22:07:40 as **
  • Hawkeye: a visual analytics tool for genome assemblies
    Genome Biology, Vol. 8 (09 March 2007), R34.
    by Michael C Schatz, Adam M Phillippy, Ben Shneiderman, Steven L Salzberg
  • The sequence of the human genome.
    Science, Vol. 291, No. 5507. (16 February 2001), pp. 1304-1351.
    by JC Venter, MD Adams, EW Myers, PW Li, RJ Mural, GG Sutton, HO Smith, M Yandell, CA Evans, RA Holt, JD Gocayne, P Amanatides, RM Ballew, DH Huson, JR Wortman, Q Zhang, CD Kodira, XH Zheng, L Chen, M Skupski, G Subramanian, PD Thomas, J Zhang, GL Gabor Miklos, C Nelson, S Broder, AG Clark, J Nadeau, VA McKusick, N Zinder, AJ Levine, RJ Roberts, M Simon, C Slayman, M Hunkapiller, R Bolanos, A Delcher, I Dew, D Fasulo, M Flanigan, L Florea, A Halpern, S Hannenhalli, S Kravitz, S Levy, C Mobarry, K Reinert, K Remington, J Abu-Threideh, E Beasley, K Biddick, V Bonazzi, R Brandon, M Cargill, I Chandramouliswaran, R Charlab, K Chaturvedi, Z Deng, V Di Francesco, P Dunn, K Eilbeck, C Evangelista, AE Gabrielian, W Gan, W Ge, F Gong, Z Gu, P Guan, TJ Heiman, ME Higgins, RR Ji, Z Ke, KA Ketchum, Z Lai, Y Lei, Z Li, J Li, Y Liang, X Lin, F Lu, GV Merkulov, N Milshina, HM Moore, AK Naik, VA Narayan, B Neelam, D Nusskern, DB Rusch, S Salzberg, W Shao, B Shue, J Sun, Z Wang, A Wang, X Wang, J Wang, M Wei, R Wides, C Xiao, C Yan, A Yao, J Ye, M Zhan, W Zhang, H Zhang, Q Zhao, L Zheng, F Zhong, W Zhong, S Zhu, S Zhao, D Gilbert, S Baumhueter, G Spier, C Carter, A Cravchik, T Woodage, F Ali, H An, A Awe, D Baldwin, H Baden, M Barnstead, I Barrow, K Beeson, D Busam, A Carver, A Center, ML Cheng, L Curry, S Danaher, L Davenport, R Desilets, S Dietz, K Dodson, L Doup, S Ferriera, N Garg, A Gluecksmann, B Hart, J Haynes, C Haynes, C Heiner, S Hladun, D Hostin, J Houck, T Howland, C Ibegwam, J Johnson, F Kalush, L Kline, S Koduru, A Love, F Mann, D May, S McCawley, T McIntosh, I McMullen, M Moy, L Moy, B Murphy, K Nelson, C Pfannkoch, E Pratts, V Puri, H Qureshi, M Reardon, R Rodriguez, YH Rogers, D Romblad, B Ruhfel, R Scott, C Sitter, M Smallwood, E Stewart, R Strong, E Suh, R Thomas, NN Tint, S Tse, C Vech, G Wang, J Wetter, S Williams, M Williams, S Windsor, E Winn-Deen, K Wolfe, J Zaveri, K Zaveri, JF Abril, R Guigó, MJ Campbell, KV Sjolander, B Karlak, A Kejariwal, H Mi, B Lazareva, T Hatton, A Narechania, K Diemer, A Muruganujan, N Guo, S Sato, V Bafna, S Istrail, R Lippert, R Schwartz, B Walenz, S Yooseph, D Allen, A Basu, J Baxendale, L Blick, M Caminha, J Carnes-Stine, P Caulk, YH Chiang, M Coyne, C Dahlke, A Mays, M Dombroski, M Donnelly, D Ely, S Esparham, C Fosler, H Gire, S Glanowski, K Glasser, A Glodek, M Gorokhov, K Graham, B Gropman, M Harris, J Heil, S Henderson, J Hoover, D Jennings, C Jordan, J Jordan, J Kasha, L Kagan, C Kraft, A Levitsky, M Lewis, X Liu, J Lopez, D Ma, W Majoros, J McDaniel, S Murphy, M Newman, T Nguyen, N Nguyen, M Nodell, S Pan, J Peck, M Peterson, W Rowe, R Sanders, J Scott, M Simpson, T Smith, A Sprague, T Stockwell, R Turner, E Venter, M Wang, M Wen, D Wu, M Wu, A Xia, A Zandieh, X Zhu
  • Discovering regulatory motifs in the Plasmodium genome using comparative genomics.
    Bioinformatics (Oxford, England) (8 July 2008)
    by Jie Wu, Douglas H H Sieglaff, Joshua Gervin, Xiaohui S S Xie
    posted to malaria genomics comparative by Neeperando on 2008-07-14 15:38:24 as ** along with 1 person semrich
  • Comparative analysis reveals signatures of differentiation amid genomic polymorphism in Lake Malawi cichlids
    Genome Biology, Vol. 9 (10 July 2008), R113.
    by Yong-Hwee E Loh, Lee S Katz, Meryl C Mims, Thomas D Kocher, Soojin Yi, Jeffrey T Streelman
    posted to comparative analysis by Neeperando on 2008-07-14 15:37:47 as ** along with 2 people biomcgary natstreet
  • Grammar-based distance in progressive multiple sequence alignment
    BMC Bioinformatics, Vol. 9 (10 July 2008), 306.
    by David J Russell, Hasan H Otu, Khalid Sayood
    posted to grammar distance alignment by Neeperando on 2008-07-14 15:36:31 as **
  • Genome-scale evolution: reconstructing gene orders in the ancestral species.
    Genome Res, Vol. 12, No. 1. (January 2002), pp. 26-36.
    by G Bourque, PA Pevzner
    posted to reconstruction genome by Neeperando on 2008-07-02 16:23:21 as ***** along with 1 person AaronDarling
  • Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals
    Genome Res., Vol. 18, No. 7. (1 July 2008), pp. 1020-1029.
    by Ines Hellmann, Yuan Mang, Zhiping Gu, Peter Li, de La, Andrew G Clark, Rasmus Nielsen
    posted to no-tag by Neeperando on 2008-07-01 19:57:29 as ** along with 4 people serdarbozdag balicea APRegier djkt
  • The biological effects of simple tandem repeats: Lessons from the repeat expansion diseases
    Genome Res., Vol. 18, No. 7. (1 July 2008), pp. 1011-1019.
    by Karen Usdin
    posted to repeat by Neeperando on 2008-07-01 19:56:25 as ** along with 2 people dchughes balicea
  • Natural Selection Shapes Genome-Wide Patterns of Copy-Number Polymorphism in Drosophila melanogaster
    Science, Vol. 320, No. 5883. (20 June 2008), pp. 1629-1631.
    by JJ Emerson, Margarida Cardoso-Moreira, Justin O Borevitz, Manyuan Long
  • 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
  • Update of the Anopheles gambiae PEST genome assembly
    Genome Biology, Vol. 8 (08 January 2007), R5.
    by Maria V Sharakhova, Martin P Hammond, Neil F Lobo, Jaroslaw Krzywinski, Maria F Unger, Maureen E Hillenmeyer, Robert V Bruggner, Ewan Birney, Frank H Collins
  • Population Genomics: Whole-Genome Analysis of Polymorphism and Divergence in Drosophila simulans
    PLoS Biology, Vol. 5, No. 11. (1 November 2007), e310.
    by David J Begun, Alisha K Holloway, Kristian Stevens, Ladeana W Hillier, Yu-Ping Poh, Matthew W Hahn, Phillip M Nista, Corbin D Jones, Andrew D Kern, Colin N Dewey, Lior Pachter, Eugene Myers, Charles H Langley
  • Assessment and improvement of the Plasmodium yoelii yoelii genome annotation through comparative analysis
    Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i383-389.
    by Ashley Vaughan, Sum-Ying Chiu, Gowthaman Ramasamy, Ling Li, Malcolm J Gardner, Alice S Tarun, Stefan H Kappe, Xinxia Peng
    posted to comparative analysis by Neeperando on 2008-06-27 14:50:56 as **
  • 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 short resequencing read assembly by Neeperando on 2008-06-27 14:50:11 as ** along with 1 person reyez
  • Database Indexing for Production MegaBLAST Searches
    Bioinformatics (21 June 2008), btn322.
    by Aleksandr Morgulis, George Coulouris, Yan Raytselis, Thomas L Madden, Richa Agarwala, Alejandro A Schaffer
    posted to alignment by Neeperando on 2008-06-23 15:46:24 as **
  • EagleView: a genome assembly viewer for next-generation sequencing technologies.
    Genome research (11 June 2008)
    by Weichun Huang, Gabor T T Marth
  • Precise detection of rearrangement breakpoints in mammalian chromosomes
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Claire Lemaitre, Eric Tannier, Christian Gautier, Marie F Sagot
  • Memory-efficient dynamic programming backtrace and pairwise local sequence alignment
    Bioinformatics (16 June 2008), btn308.
    by Lee A Newberg
    posted to programming dynamic alignment by Neeperando on 2008-06-17 14:58:26 as **
  • Whole-genome alignments and polytopes for comparative genomics
    PhD Thesis (2006)
    by C Dewey
    posted to scaffolding genome comparative alignment by Neeperando on 2008-06-16 18:31:29 as read
  • notes Finding all k-cliques in k-partite graphs, an application in textile engineering
    Computers & Operations Research, Vol. 29, No. 1. (January 2002), pp. 13-31.
    by Tore Grünert, Stefan Irnich, Hans-Jürgen Zimmermann, Markus Schneider, Burkhard Wulfhorst
    posted to k-partite graph clique by Neeperando on 2008-06-16 15:37:57 as **
  • Sequence-specific reconstruction from fragmentary databases using seed sequences: implementation and validation on SAGE, proteome and generic sequencing data
    Bioinformatics (9 June 2008), btn283.
    by Tiago J Sobreira, Arthur Gruber
    posted to assembly by Neeperando on 2008-06-11 16:03:34 as *** along with 1 person sconlan
  • End-sequence profiling: sequence-based analysis of aberrant genomes.
    Proc Natl Acad Sci U S A, Vol. 100, No. 13. (24 June 2003), pp. 7696-7701.
    by S Volik, S Zhao, K Chin, JH Brebner, DR Herndon, Q Tao, D Kowbel, G Huang, A Lapuk, WL Kuo, G Magrane, P De Jong, JW Gray, C Collins
    posted to paired end analysis by Neeperando on 2008-06-09 18:15:11 as **** along with 1 person emb51
  • Toward simplifying and accurately formulating fragment assembly.
    Journal of computational biology : a journal of computational molecular cell biology, Vol. 2, No. 2. (1995), pp. 275-290.
    by EW Myers
    posted to assembly by Neeperando on 2008-06-02 20:08:58 as **
  • The current excitement about copy-number variation: how it relates to gene duplications and protein families.
    Current opinion in structural biology (27 May 2008)
    by Jan O O Korbel, Philip M M Kim, Xueying Chen, Alexander Eckehart E Urban, Sherman Weissman, Michael Snyder, Mark B B Gerstein
    posted to variation number copy by Neeperando on 2008-06-02 15:29:44 as ** along with 1 person cabbagesofdoom
  • Rapid genome sequencing with short universal tiling probes.
    Nature biotechnology (25 May 2008)
    by Arno Pihlak, Göran Baurén, Ellef Hersoug, Peter Lönnerberg, Ats Metsis, Sten Linnarsson
    posted to pyrosequencing by Neeperando on 2008-06-02 15:27:45 as ** along with 1 person austin
  • DupMasker: A tool for annotating primate segmental duplications
    Genome Res. (23 May 2008), gr.078477.108.
    by Zhaoshi Jiang, Robert Hubley, Arian Smit, Evan E Eichler
  • Paired-End Mapping Reveals Extensive Structural Variation in the Human Genome.
    Science (27 September 2007)
    by Jan O O Korbel, Alexander Eckehart E Urban, Jason P P Affourtit, Brian Godwin, Fabian Grubert, Jan Fredrik F Simons, Philip M M Kim, Dean Palejev, Nicholas J J Carriero, Lei Du, Bruce E E Taillon, Zhoutao Chen, Andrea Tanzer, A C Eugenia C Saunders, Jianxiang Chi, Fengtang Yang, Nigel P P Carter, Matthew E E Hurles, Sherman M M Weissman, Timothy T T Harkins, Mark B B Gerstein, Michael Egholm, Michael Snyder
  • Fine-scale structural variation of the human genome
    Nature Genetics, Vol. 37, No. 7. (15 May 2005), pp. 727-732.
    by Eray Tuzun, Andrew J Sharp, Jeffrey A Bailey, Rajinder Kaul, Anne V Morrison, Lisa M Pertz, Eric Haugen, Hillary Hayden, Donna Albertson, Daniel Pinkel, Maynard V Olson, Evan E Eichler
    posted to read pair matepair analysis by Neeperando on 2008-05-30 14:47:05 as read along with 2 people bpb pcahan1
  • ReAS: Recovery of Ancestral Sequences for Transposable Elements from the Unassembled Reads of a Whole Genome Shotgun
    PLoS Comput Biol, Vol. 1, No. 4. (Sep 2005)
    by Ruiqiang Li, Jia Ye, Songgang Li, Jing Wang, Yujun Han, Chen Ye, Jian Wang, Huanming Yang, Jun Yu, Gane, Jun Wang
    posted to repeat assembly by Neeperando on 2008-05-29 14:51:46 as **
  • Automated de novo identification of repeat sequence families in sequenced genomes.
    Genome Res, Vol. 12, No. 8. (August 2002), pp. 1269-1276.
    by Z Bao, SR Eddy
  • Measuring Global Credibility with Application to Local Sequence Alignment
    PLoS Comput Biol, Vol. 4, No. 5. (May 2008)
    by Bobbie, Lee A Mccue, Charles E Lawrence
    posted to alignment by Neeperando on 2008-05-28 15:39:51 as ***
  • Evaluation of Paired-End Sequencing Strategies for Detection of Genome Rearrangements in Cancer
    PLoS Comput Biol, Vol. 4, No. 4. (Apr 2008)
    by Ali Bashir, Stanislav Volik, Colin Collins, Vineet Bafna, Benjamin J Raphael
    posted to read pair matepair analysis by Neeperando on 2008-05-28 15:38:06 as read
  • Extending assembly of short DNA sequences to handle error.
    Bioinformatics, Vol. 23, No. 21. (1 November 2007), pp. 2942-2944.
    by WR Jeck, JA Reinhardt, DA Baltrus, MT Hickenbotham, V Magrini, ER Mardis, JL Dangl, CD Jones
    posted to short read assembly by Neeperando on 2008-05-28 15:35:21 as *** along with 2 people jyuh azazello
  • A Robust Framework for Detecting Structural Variations in a Genome
    Proceedings of the 16th Annual International Conference on Intelligent Systems in Molecular Biology (ISMB). (2008)
    by Seunghak Lee, Elango Cheran, Michael Brudno
    posted to variation structural matepair by Neeperando on 2008-05-28 15:34:02 as read
  • Improving Phrap-Based Assembly of the Rat Using "Reliable" Overlaps
    PLoS ONE, Vol. 3, No. 3. (2008)
    by Michael Roberts, Aleksey V Zimin, Wayne Hayes, Brian R Hunt, Cevat Ustun, James R White, Paul Havlak, James Yorke
    posted to assembly by Neeperando on 2008-05-27 16:53:17 as ***
  • 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
  • notes Glocal alignment: finding rearrangements during alignment.
    Bioinformatics, Vol. 19 Suppl 1 (2003)
    by M Brudno, S Malde, A Poliakov, CB Do, O Couronne, I Dubchak, S Batzoglou
    posted to alignment by Neeperando on 2008-05-26 17:48:28 as read along with 1 person sujaikumar
  • Aligning multiple whole genomes with Mercator and MAVID.
    Methods in molecular biology (Clifton, N.J.), Vol. 395 (2007), pp. 221-236.
    by CN Dewey
    posted to alignment by Neeperando on 2008-05-20 21:58:23 as read
  • Comparative genomics.
    PLoS Biol, Vol. 1, No. 2. (November 2003)
    by RC Hardison
  • COMPARATIVE GENOMICS
    Annual Review of Genomics and Human Genetics, Vol. 5, No. 1. (2004), pp. 15-56.
    by Webb Miller, Kateryna D Makova, Anton Nekrutenko, Ross C Hardison
    posted to review genomics comparative by Neeperando on 2008-05-20 21:53:43 as **
  • Aspects of coverage in medical DNA sequencing
    BMC Bioinformatics, Vol. 9 (16 May 2008), 239.
    by Michael C Wendl, Richard K Wilson
    posted to sequencing coverage by Neeperando on 2008-05-20 17:03:34 as **
  • R-Coffee: a method for multiple alignment of non-coding RNA.
    Nucleic acids research (17 April 2008)
    by Andreas Wilm, Desmond G G Higgins, Cédric Notredame
    posted to alignment by Neeperando on 2008-05-20 17:02:58 as ** along with 2 people marck urgi
  • Current Comparative Table (CCT) automates customized searches of dynamic biological databases.
    Nucleic acids research, Vol. 33, No. Web Server issue. (1 July 2005)
    posted to no-tag by Neeperando on 2008-05-19 16:51:18 as read
  • A scaffold analysis tool using mate-pair information in genome sequencing.
    Journal of biomedicine & biotechnology, Vol. 2008 (2008)
    by PG Kim, HG Cho, K Park
    posted to validation read pair assembly by Neeperando on 2008-05-19 16:30:45 as ****
  • Assembly of the working draft of the human genome with GigAssembler.
    Genome research, Vol. 11, No. 9. (September 2001), pp. 1541-1548.
    by WJ Kent, D Haussler
    posted to scaffolding assembly by Neeperando on 2008-05-19 16:29:05 as ***
  • Assembly reconciliation.
    Bioinformatics (Oxford, England), Vol. 24, No. 1. (1 January 2008), pp. 42-45.
    by AV Zimin, DR Smith, G Sutton, JA Yorke
    posted to reconciliation assembly by Neeperando on 2008-05-19 16:28:18 as ****
  • Hierarchical scaffolding with Bambus.
    Genome Res, Vol. 14, No. 1. (January 2004), pp. 149-159.
    by M Pop, DS Kosack, SL Salzberg
  • 注: このページを引用する時は次のURLでどうぞ: http://www.citeulike.org/user/Neeperando

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