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AaronDarling alignment [25 articles]

Recent papers added to AaronDarling library classified by the tag alignment. You can also see everyone's alignment.
  • Uncertainty in homology inferences: Assessing and improving genomic sequence alignment
    Genome Res., Vol. 18, No. 2. (1 February 2008), pp. 298-309.
    by Gerton Lunter, Andrea Rocco, Naila Mimouni, Andreas Heger, Alexandre Caldeira, Jotun Hein
    posted to alignment by AaronDarling on 2008-06-12 12:21:56 as ** along with 8 people aprasad brant treangen djkt grahamc dandaman mailund gjuggler
  • 28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
    Genome Res. (5 November 2007), gr.6761107.
    by Webb Miller, Kate Rosenbloom, Ross C Hardison, Minmei Hou, James Taylor, Brian Raney, Richard Burhans, David C King, Robert Baertsch, Daniel Blankenberg, Kosakovsky, Anton Nekrutenko, Belinda Giardine, Robert S Harris, Svitlana Tyekucheva, Mark Diekhans, Thomas H Pringle, William J Murphy, Arthur Lesk, George M Weinstock, Kerstin Lindblad-Toh, Richard A Gibbs, Eric S Lander, Adam Siepel, David Haussler, James W Kent
    posted to alignment by AaronDarling on 2008-06-12 12:20:58 as ** along with 10 people aprasad dchughes nklee maximilianh idonaldson fpattyn gjuggler clearbluespring joavah jyuh
  • Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 760-774.
    by Elliott H Margulies, Gregory M Cooper, George Asimenos, Daryl J Thomas, Colin N Dewey, Adam Siepel, Ewan Birney, Damian Keefe, Ariel S Schwartz, Minmei Hou, James Taylor, Sergey Nikolaev, Juan I Montoya-Burgos, Ari Loytynoja, Simon Whelan, Fabio Pardi, Tim Massingham, James B Brown, Peter Bickel, Ian Holmes, James C Mullikin, Abel Ureta-Vidal, Benedict Paten, Eric A Stone, Kate R Rosenbloom, James W Kent, Gerard G Bouffard, Xiaobin Guan, Nancy F Hansen, Jacquelyn R Idol, Valerie V Maduro, Baishali Maskeri, Jennifer C Mcdowell, Morgan Park, Pamela J Thomas, Alice C Young, Robert W Blakesley, Donna M Muzny, Erica Sodergren, David A Wheeler, Kim C Worley, Huaiyang Jiang, George M Weinstock, Richard A Gibbs, Tina Graves, Robert Fulton, Elaine R Mardis, Richard K Wilson, Michele Clamp, James Cuff, Sante Gnerre, David B Jaffe, Jean L Chang, Kerstin Lindblad-Toh, Eric S Lander, Angie Hinrichs, Heather Trumbower, Hiram Clawson, Ann Zweig, Robert M Kuhn, Galt Barber, Rachel Harte, Donna Karolchik, Matthew A Field, Richard A Moore, Carrie A Matthewson, Jacqueline E Schein, Marco A Marra, Stylianos E Antonarakis, Serafim Batzoglou, Nick Goldman, Ross Hardison, David Haussler, Webb Miller, Lior Pachter, Eric D Green, Arend Sidow
    posted to alignment by AaronDarling on 2008-01-23 11:20:02 as ** along with 7 people and 4 groups dpollard dchughes djkt ghattem Garamonfok gjuggler elfar Bioinformatics EisenLab G4ID Genetics-of-Gambling
  • Probabilistic whole-genome alignments reveal high indel rates in the human and mouse genomes.
    Bioinformatics, Vol. 23, No. 13. (1 July 2007)
    by G Lunter
    posted to alignment by AaronDarling on 2008-01-23 11:19:28 as ** along with 3 people and 1 group aprasad mailund elfar Bioinformatics
  • OWEN: aligning long collinear regions of genomes.
    Bioinformatics, Vol. 18, No. 12. (December 2002), pp. 1703-1704.
    by AY Ogurtsov, MA Roytberg, SA Shabalina, AS Kondrashov
    posted to alignment by AaronDarling on 2007-10-30 04:13:04 as ** along with 1 person operon
  • M-GCAT: Interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species
    BMC Bioinformatics, Vol. 7 (05 October 2006), 433.
    by Todd J Treangen, Xavier Messeguer
    posted to alignment genomecomparison genomerearrangement by AaronDarling on 2007-09-09 08:59:45 as ** along with 1 person treangen
  • An Integrative Method for Accurate Comparative Genome Mapping.
    PLoS Comput Biol, Vol. 2, No. 8. (4 August 2006)
    by Firas Swidan, Eduardo P C P Rocha, Michael Shmoish, Ron Y Y Pinter
    posted to alignment genomerearrangement by AaronDarling on 2007-09-09 08:53:38 as ** along with 1 person bjorns
  • Pairwise alignment with rearrangements.
    Genome Inform, Vol. 17, No. 2. (2006), pp. 141-151.
    by le S Vinh, A Varón, WC Wheeler
    posted to alignment genomerearrangement by AaronDarling on 2007-09-09 08:52:43 as **
  • Measuring the accuracy of genome-size multiple alignments
    Genome Biology, Vol. 8 (26 June 2007), R124.
    by Amol Prakash, Martin Tompa
    posted to alignment by AaronDarling on 2007-09-06 09:21:24 as ** along with 3 people and 2 groups dpollard stajich lilou EisenLab Berkeley Mycology
  • A local alignment tool for very long DNA sequences.
    Comput Appl Biosci, Vol. 11, No. 2. (April 1995), pp. 147-153.
    by KM Chao, J Zhang, J Ostell, W Miller
    posted to alignment by AaronDarling on 2007-09-06 08:57:58 as **
  • Multiseed Lossless Filtration
    IEEE/ACM Trans. Comput. Biol. Bioinformatics, Vol. 2, No. 1. (January 2005), pp. 51-61.
    by Gregory Kucherov, Laurent Noe, Mikhail Roytberg
    posted to alignment by AaronDarling on 2007-09-06 08:46:55 as ** along with 1 person nedwards
  • Scoring pairwise genomic sequence alignments.
    Pac Symp Biocomput (2002), pp. 115-126.
    by F Chiaromonte, VB Yap, W Miller
    posted to alignment by AaronDarling on 2006-07-12 03:40:16 as ** along with 1 person treangen
  • Progressive sequence alignment as a prerequisite to correct phylogenetic trees.
    J Mol Evol, Vol. 25, No. 4. (1987), pp. 351-360.
    by DF Feng, RF Doolittle
    posted to alignment by AaronDarling on 2006-07-12 03:37:26 as ** along with 3 people balajis nuke2005 newton1234
  • A greedy algorithm for aligning DNA sequences.
    J Comput Biol, Vol. 7, No. 1-2. (r 2000), pp. 203-214.
    by Z Zhang, S Schwartz, L Wagner, W Miller
    posted to alignment by AaronDarling on 2006-07-11 07:18:07 as ** along with 4 people azazello sujaikumar benwei bozdagd
  • AuberGene--a sensitive genome alignment tool.
    Bioinformatics, Vol. 22, No. 12. (15 June 2006), pp. 1431-1436.
    by R Szklarczyk, J Heringa
    posted to alignment genomecomparison by AaronDarling on 2006-07-04 01:11:21 as ** along with 3 people operon feenstra treangen
  • Evolution at the nucleotide level: the problem of multiple whole-genome alignment.
    Hum Mol Genet, Vol. 15 Suppl 1 (15 April 2006)
    by CN Dewey, L Pachter
    posted to alignment genomerearrangement orthology by AaronDarling on 2006-05-15 19:39:07 as ** along with 6 people and 2 groups operon Ayest tny dchughes echinotrix Neeperando G4ID Genetics-of-Gambling
  • Global multiple-sequence alignment with repeats.
    Proteins (11 April 2006)
    by Michael Sammeth, Jaap Heringa
    posted to alignment repeats wabi by AaronDarling on 2006-05-11 06:30:26 as ** along with 1 person feenstra
  • A genomic perspective on protein families.
    Science, Vol. 278, No. 5338. (24 October 1997), pp. 631-637.
    by RL Tatusov, EV Koonin, DJ Lipman
    posted to alignment cog wabi by AaronDarling on 2006-05-11 06:25:01 as ** along with 6 people bjorns balajis nuke2005 ruvido ninch Ema
  • Using multiple alignments to improve seeded local alignment algorithms.
    Nucleic Acids Res, Vol. 33, No. 14. (2005), pp. 4563-4577.
    by J Flannick, S Batzoglou
    posted to alignment wabi by AaronDarling on 2006-05-11 06:22:48 as ** along with 2 people balajis afn
  • Improved hit criteria for DNA local alignment.
    BMC Bioinformatics, Vol. 5 (14 October 2004)
    by L Noé, G Kucherov
    posted to alignment wabi by AaronDarling on 2006-05-11 06:20:23 as ** along with 5 people umit timflutre nedwards bozdagd treangen
  • Fast and sensitive alignment of large genomic sequences.
    Proc IEEE Comput Soc Bioinform Conf, Vol. 1 (2002), pp. 138-147.
    by M Brudno, B Morgenstern
    posted to alignment wabi by AaronDarling on 2006-05-11 06:19:21 as read
  • Versatile and open software for comparing large genomes.
    Genome Biol, Vol. 5, No. 2. (2004)
    by S Kurtz, A Phillippy, AL Delcher, M Smoot, M Shumway, C Antonescu, SL Salzberg
    posted to alignment genomerearrangement nsfprop by AaronDarling on 2006-04-06 20:05:47 as read along with 6 people natstreet druvus adelcher michC yoanjacquemin Neeperando
  • notes Mauve: multiple alignment of conserved genomic sequence with rearrangements.
    Genome Res, Vol. 14, No. 7. (July 2004), pp. 1394-1403.
    by AC Darling, B Mau, FR Blattner, NT Perna
    posted to alignment genomerearrangement nsfprop by AaronDarling on 2006-04-06 20:04:46 as read along with 9 people and 1 group Neeperando bcondon semrich operon catmat leelarcombe azazello mariakmejia druvus gatech-compgenomics
  • Parametric inference of recombination in HIV genomes
    (8 Dec 2005)
    by Niko Beerenwinkel, Colin N Dewey, Kevin M Woods
    posted to alignment evolution recombination by AaronDarling on 2006-03-18 22:06:03 as **
  • Parametric Alignment of Drosophila Genomes
    (2 Dec 2005)
    by Colin Dewey, Peter Huggins, Kevin Woods, Bernd Sturmfels, Lior Pachter
    posted to alignment sequence by AaronDarling on 2006-03-18 22:04:32 as **
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