dpollard's alignment [25 articles] Export

Recent papers added to dpollard's library classified by the tag alignment. You can also see everyone's alignment.

	Alignment Uncertainty and Genomic Analysis [My Copy] Science, Vol. 319, No. 5862. (25 January 2008), pp. 473-476. by Karen M. Wong, Marc A. Suchard, John P. Huelsenbeck posted to alignment alignment_accuracy by dpollard on 2008-02-01 06:16:50 as along with 32 people and 2 groups operon walshtp darian ptrobajo friendpine skembel druvus treangen bpb aprasad dayjm pradiptaray tny djkt cjeans zwang lisa1 cactus biomcgary lilou dandaman gjuggler renatomilani mclarenv youdon bpcusack guhjy jdelcampo adacier gracio timflutre jfr EisenLab microbiology_nijmegen
	The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses. [My Copy] Pac Symp Biocomput (2008), pp. 25-36. by S. Nelesen, K. Liu, D. Zhao, C. R. Linder, T. Warnow posted to accuracy alignment alignment_accuracy method multiple_alignment phylogeny reconstruction by dpollard on 2008-02-01 06:14:51 as along with 2 people and 1 group sriesenfeld treangen EisenLab
	MORPH: Probabilistic Alignment Combined with Hidden Markov Models of cis-Regulatory Modules [My Copy] PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e216. by Saurabh Sinha, Xin He posted to alignment alignment_accuracy binding_site_alignment brant_presented cis_regulatory_elements eisen_journal_club method round_robin by dpollard on 2007-11-16 23:53:34 as along with 7 people and 2 groups ana cjeans zwang maximilianh hpaces Ema uwe EisenLab cis-regulatory-evolution
	Enhancing the quality of phylogenetic analysis using fuzzy hidden Markov model alignments. [My Copy] Medinfo, Vol. 12, No. Pt 2. (2007), pp. 1245-1249. by C. Collyda, S. Diplaris, P. Mitkas, N. Maglaveras, C. Pappas posted to alignment alignment_accuracy method phylogeny by dpollard on 2007-10-25 02:23:22 as along with 1 group EisenLab
	Incorporating evolution of transcription factor binding sites into annotated alignments. [My Copy] J Biosci, Vol. 32, No. 5. (August 2007), pp. 841-850. by A. S. Bais, S. Grossmann, M. Vingron posted to alignment binding_site conserved method prediction by dpollard on 2007-10-25 02:20:56 as along with 1 person and 2 groups maximilianh EisenLab cis-regulatory-evolution
	Measuring the accuracy of genome-size multiple alignments [My Copy] Genome Biology, Vol. 8 (26 June 2007), R124. by Amol Prakash, Martin Tompa posted to alignment alignment_accuracy whole_genome by dpollard on 2007-10-25 01:39:42 as along with 5 people and 2 groups druvus treangen AaronDarling stajich lilou EisenLab Mycology
	Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments [My Copy] BMC Bioinformatics, Vol. 7 (14 August 2006), 376. by Daniel A. Pollard, Alan M. Moses, Venky N. Iyer, Michael B. Eisen posted to alignment alignment_accuracy binding_site_alignment divergence_estimation tree_topology by dpollard on 2007-08-02 01:13:48 as along with 6 people and 2 groups aprasad lusk Garamonfok lilou cisevol emptyhb EisenLab cis-regulatory-evolution
	Multiple sequence alignment accuracy and evolutionary distance estimation. [My Copy] BMC Bioinformatics, Vol. 6 (2005) by M. S. Rosenberg posted to alignment alignment_accuracy divergence_estimation by dpollard on 2007-08-02 01:09:41 as along with 3 people and 2 groups treangen aprasad cisevol EisenLab cis-regulatory-evolution
	The many faces of sequence alignment [My Copy] Brief Bioinform, Vol. 6, No. 1. (1 January 2005), pp. 6-22. by Serafim Batzoglou posted to alignment review by dpollard on 2007-08-02 01:04:27 as along with 11 people and 2 groups nuttpo druvus n00c pimmy timflutre BioNica treangen balajis sdvillal gjuggler yoanjacquemin Bioinformatics EisenLab
	Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome [My Copy] Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 760-774. by Elliott H. Margulies, Gregory M. Cooper, George Asimenos, et al.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 constraint encode mammal by dpollard on 2007-06-29 05:54:18 as along with 11 people and 5 groups daveGerrard polivares timflutre aprasad dchughes AaronDarling djkt ghattem Garamonfok gjuggler elfar BergmanLab Bioinformatics EisenLab G4ID Genetics-of-Gambling
	STAMP: a web tool for exploring DNA-binding motif similarities. [My Copy] Nucleic acids research, Vol. 35, No. Web Server issue. (3 July 2007) by Shaun Mahony, Panayiotis V. Benos posted to alignment method motif pwm website by dpollard on 2007-05-23 00:40:45 as along with 3 people and 1 group yuslinaz aalibes raylim EisenLab
	Incorporating indel information into phylogeny estimation for rapidly emerging pathogens [My Copy] BMC Evolutionary Biology, Vol. 7, No. 1. (14 March 2007), 40. by Benjamin Redelings, Marc Suchard posted to alignment gene indels method phylogeny by dpollard on 2007-03-22 22:56:37 as along with 5 people and 1 group timflutre druvus operon aprasad stajich EisenLab
	Multiple alignment by sequence annealing. [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007) by A. S. Schwartz, L. Pachter posted to protein method alignment by dpollard on 2007-02-01 19:47:22 as along with 1 group EisenLab
	Simultaneous alignment and annotation of cis-regulatory regions. [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007) by A. S. Bais, S. Grossmann, M. Vingron posted to prediction binding_site alignment by dpollard on 2007-02-01 19:45:23 as along with 2 people and 1 group indigoviolet bluto EisenLab
	Logarithmic gap costs decrease alignment accuracy [My Copy] BMC Bioinformatics, Vol. 7 (05 December 2006), 527. by Reed A. Cartwright posted to indels alignment accuracy by dpollard on 2007-01-19 16:35:28 as along with 4 people and 1 group timflutre druvus treangen groepl EisenLab
	LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA. [My Copy] Genome Res, Vol. 13, No. 4. (April 2003), pp. 721-731. by M. Brudno, C. B. Do, G. M. Cooper, et al.M. F. Kim, E. Davydov, E. D. Green, A. Sidow, S. Batzoglou, posted to alignment noncoding by dpollard on 2006-11-07 01:53:28 as along with 14 people and 1 group treangen operon balajis xwbcn dquest adepace hdopazo lusk Garamonfok adijr natstreet nklee Neeperando kcrawlik EisenLab
	Vertebrate gene finding from multiple-species alignments using a two-level strategy. [My Copy] Genome Biol, Vol. 7 Suppl 1 (2006) by D. Carter, R. Durbin posted to alignment gene prediction by dpollard on 2006-09-30 00:22:15 as along with 2 people and 2 groups indigoviolet dmc EisenLab Durbin group
	Quantification of the variation in percentage identity for protein sequence alignments [My Copy] BMC Bioinformatics, Vol. 7 (19 September 2006), 415. by Ps G. Raghava, Geoffrey J. Barton posted to accuracy alignment gene method protein by dpollard on 2006-09-30 00:20:09 as along with 7 people and 1 group thegoose sgoetz pansapiens bicko rabio medic0747 sujaikumar EisenLab
	MACO: A gapped-alignment scoring tool for comparing transcription factor binding sites. [My Copy] In Silico Biol, Vol. 6, No. 4. (29 May 2006) by Gang Su, Binchen Mao, Jin Wang posted to alignment matrix pwm similarity by dpollard on 2006-08-25 17:56:58 as along with 1 group EisenLab
	Close sequence comparisons are sufficient to identify human cis-regulatory elements. [My Copy] Genome Res (12 June 2006) by Shyam Prabhakar, Francis Poulin, Malak Shoukry, et al.Veena Afzal, Edward M M. Rubin, Olivier Couronne, Len A A. Pennacchio posted to alignment annotation conserved constraint evolution human mammal prediction rate selection transcription turnover by dpollard on 2006-06-16 20:47:54 as along with 8 people and 2 groups indigoviolet samal nickluscombe olympos emptyhb bpcusack mariakmejia kcrawlik EisenLab EBI-regulation
	MCALIGN2: Faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (08 June 2006), 292. by Jun Wang, Peter Keightley, Toby Johnson posted to alignment evolution indel model by dpollard on 2006-06-16 20:34:32 as along with 6 people and 1 group timflutre druvus gjuggler Ayest papamicd bozdagd EisenLab
	Evolutionary turnover of mammalian transcription start sites. [My Copy] Genome Res (10 May 2006) by Martin C C. Frith, Jasmina Ponjavic, David Fredman, et al.Chikatoshi Kai, Jun Kawai, Piero Carninci, Yoshihide Hayshizaki, Albin Sandelin posted to alignment conserved evolution gene mammal promoter transcription turnover vertebrate by dpollard on 2006-05-12 17:41:10 as along with 5 people and 3 groups galka8_diploma cmm jsnoddy cisevol gjuggler EisenLab FAB-lab cis-regulatory-evolution
	Evaluating phylogenetic footprinting for human-rodent comparisons. [My Copy] Bioinformatics, Vol. 22, No. 4. (15 February 2006), pp. 430-437. by T. Sauer, E. Shelest, E. Wingender posted to alignment binding conserved evolution mammal motif rate transcription vertebrate by dpollard on 2006-05-01 22:45:46 as along with 1 group EisenLab
	Reference based annotation with GeneMapper. [My Copy] Genome Biol, Vol. 7, No. 4. (5 April 2006) by Sourav Chatterji, Lior Pachter posted to alignment annotation gene method by dpollard on 2006-04-08 23:24:07 as along with 4 people and 2 groups indigoviolet penka wenhan skumagai EisenLab Nie
	Sigma: multiple alignment of weakly-conserved non-coding DNA sequence. [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (16 March 2006) by Rahul Siddharthan posted to alignment noncoding by dpollard on 2006-04-02 23:08:10 as along with 3 people and 2 groups aprasad cisevol lilou cis-regulatory-evolution EisenLab

Note: You may cite this page as: http://www.citeulike.org/user/dpollard/tag/alignment

drosophila	119
eisen_journal_club	115
round_robin	94
evolution	71
method	56
cis_regulatory_elements	51
gene	45
prediction	43
expression	40
binding_site	32
transcription	27
alignment	25
yeast	25
review	24
development	22
variation	22
in_depth_suggestion	20
transcription_factor	19
motif	18
phylogeny	18
selection	18
expression_pattern	17
turnover	17
binding	16
genome_architecture	16
polymorphism	16
regulatory_evolution	16
rockman_journal_club	16
adaptive	15
conserved	15
dan_presented	15
network	15
qtl	15
rate	15
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human	14
modeling	14
devin_presented	13
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c_elegans	12
colin_presented	12
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pattern	12
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chip_chip	11
in_depth	11
promoter	11
rnai	11
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regulatory_sequence_evolution	10
rich_presented	10
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eqtl	9
expression_divergence	9
insect	9
model	9
ab_initio	8
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stuart_presented	8
venky_presented	8
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lab_library	7
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seminal_paper	5
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system	5
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vertebrate	5
bacteria	4
brant_presented	4
chromatin_modification	4
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dynamics	4
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genome_wide	4
indel	4
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lenny_presented	4
nervous	4
neuro	4
snps	4
te	4
worms	4
accuracy	3
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argonaute	3
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experimental_evolution	3
fitness	3
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base	1
bee	1
biochemical	1
biophysical_model	1
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diffusion	1
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gene_function_evolution	1
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gene_vs_species_tree	1
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heart	1
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life	1
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low_frequency	1
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maternal	1
matrix	1
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solexa	1
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steric_repression	1
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threshold	1
timing	1
tissue_specific	1
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trait_covariance	1
trait_decomposition	1
tree_topology	1
tribolium	1
virilis	1
weak	1
x_inactivation	1
x_vs_autosomes	1
zygotic	1

dpollard's alignment [25 articles] Export

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