Group: iSEEM - with tag alignment [20 articles] Export

Recent papers posted by members of the iSEEM group with tag alignment

	Fast mapping of short sequences with mismatches, insertions and deletions using index structures. [My Copy] PLoS computational biology, Vol. 5, No. 9. (11 September 2009), e1000502. by Steve Hoffmann, Christian Otto, Stefan Kurtz, et al.Cynthia M. Sharma, Philipp Khaitovich, Jörg Vogel, Peter F. Stadler, Jörg Hackermüller posted to sequencing indel alignment by djkt to the group iSEEM on 2009-09-11 16:28:11 as along with 19 people and 3 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot walshtp torfinnnome stubrown dswan polivares orzenil natstreet jmcq n00c heliopais ppgardne druvus Bioinformatics BergmanLab Journal picks
	Evolutionary Triplet Models of Structured RNA [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000483. by Robert K. Bradley, Ian Holmes posted to structure rna phylogenetics alignment by djkt to the group iSEEM on 2009-08-31 19:26:10 as along with 1 person and 1 group ppgardne Journal picks
	A Machine-Learning Approach Reveals That Alignment Properties Alone Can Accurately Predict Inference of Lateral Gene Transfer from Discordant Phylogenies [My Copy] Mol Biol Evol, Vol. 26, No. 9. (1 September 2009), pp. 1931-1939. by Mayo Roettger, William Martin, Tal Dagan posted to phylogenetics gene-transfer alignment by djkt to the group iSEEM on 2009-08-13 22:57:54 as along with 3 people and 1 group gwallau stajich operon Mycology
	HaMStR: Profile hidden markov model based search for orthologs in ESTs [My Copy] BMC Evolutionary Biology, Vol. 9, No. 1. (08 July 2009), 157. by Ingo Ebersberger, Sascha Strauss, Arndt von Haeseler posted to alignment hmm phylogenetics by djkt to the group iSEEM on 2009-07-27 18:02:32 as
	Rapid detection, classification and accurate alignment of up to a million or more related protein sequences [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1869-1875. by Andrew F. Neuwald posted to alignment proteins by djkt to the group iSEEM on 2009-07-18 00:47:08 as along with 4 people and 2 groups davidmam robfsouza ollieredfernwork carlosjavierna Orengo Group Journal Picks Journal picks
	CORAL: aligning conserved core regions across domain families [My Copy] Bioinformatics, Vol. 25, No. 15. (1 August 2009), pp. 1862-1868. by Jessica H. Fong, Aron Marchler-Bauer posted to alignment proteins by djkt to the group iSEEM on 2009-07-18 00:46:43 as along with 4 people and 2 groups ollieredfernwork AlexBateman natstreet druvus Orengo Group Journal Picks Journal picks
	Rapid and Accurate Large-Scale Coestimation of Sequence Alignments and Phylogenetic Trees [My Copy] Science, Vol. 324, No. 5934. (19 June 2009), pp. 1561-1564. by Kevin Liu, Sindhu Raghavan, Serita Nelesen, C. Randal Linder, Tandy Warnow posted to alignment phylogenetics by djkt to the group iSEEM on 2009-06-19 21:41:58 as along with 26 people and 3 groups gjuggler parnell kinestetika robertrentzsch xianjun gdb jbhiatt stajich operon biomcgary kieran101 zwang michaelbarton vingron tatman303 hryk lizbiogen pkonings ppgardne dokky aprasad timflutre inquil TRHvidsten fenghezi phoenixzxl Orengo Group Journal Picks Mycology Journal picks
	Efficient computation of the phylogenetic likelihood function on multi-gene alignments and multi-core architectures [My Copy] Philosophical Transactions of the Royal Society B: Biological Sciences, Vol. 363, No. 1512. (27 December 2008), pp. 3977-3984. by Alexandros Stamatakis, Michael Ott posted to alignment phylogenetics by skembel to the group iSEEM on 2009-06-17 22:24:36 as along with 1 person operon
	Infernal 1.0: inference of RNA alignments. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 10. (15 May 2009), pp. 1335-1337. by Eric P. Nawrocki, Diana L. Kolbe, Sean R. Eddy posted to alignment rna by djkt to the group iSEEM on 2009-05-07 12:59:43 as along with 6 people reyez operon neils nuin natstreet druvus
	Local RNA structure alignment with incomplete sequence. [My Copy] Bioinformatics (Oxford, England) (20 March 2009) by Diana L L. Kolbe, Sean R R. Eddy posted to alignment metagenomics rna structure by djkt to the group iSEEM on 2009-05-07 12:58:52 as along with 4 people skembel reyez nuin mhamada
	Ultrafast and memory-efficient alignment of short DNA sequences to the human genome [My Copy] Genome Biology, Vol. 10, No. 3. (2009), R25. by Ben Langmead, Cole Trapnell, Mihai Pop, Steven Salzberg posted to alignment genomics methods by skembel to the group iSEEM on 2009-04-13 19:31:55 as along with 36 people and 3 groups jfr hzoltan cthachuk darshan fstrozzi adijr debasis bozdagd polivares torfinnnome n00c talponer jmcq rschulz ghattem operon humburg idonaldson mmartin dquest heliopais djkt GeeSharpMinor bertelsen darian semrich dakelley idoerg vmsr hpaces admash pdexheimer mhamada fpattyn natstreet druvus BergmanLab SIMR bioinformatics Notre Dame Bioinformatics
	PASS: a program to align short sequences [My Copy] Bioinformatics, Vol. 25, No. 7. (1 April 2009), pp. 967-968. by Davide Campagna, Alessandro Albiero, Alessandra Bilardi, et al.Elisa Caniato, Claudio Forcato, Svetlin Manavski, Nicola Vitulo, Giorgio Valle posted to alignment software by skembel to the group iSEEM on 2009-04-02 20:02:05 as along with 19 people cthachuk hzoltan seb1 bozdagd adijr heliopais darian maren n00c nuin cassj Neeperando helminth_lab rschulz guhjy natstreet druvus renatomilani WanderingAengus
	A hierarchical model for incomplete alignments in phylogenetic inference [My Copy] Bioinformatics, Vol. 25, No. 5. (1 March 2009), pp. 592-598. by Fuxia Cheng, Stefanie Hartmann, Mayetri Gupta, Joseph G. Ibrahim, Todd J. Vision posted to alignment metagenomics phylogenetics proteins by djkt to the group iSEEM on 2009-01-20 05:15:50 as along with 7 people nuin druvus skembel mhamada jmeppley sriesenfeld jameswasmuth
	Rose: generating sequence families. [My Copy] Bioinformatics (Oxford, England), Vol. 14, No. 2. (1 March 1998), pp. 157-163. by J. Stoye, D. Evers, F. Meyer posted to alignment proteins simulation by djkt to the group iSEEM on 2009-01-20 05:05:29 as along with 3 people hryk gjuggler adijr
	Profile Comparer: a program for scoring and aligning profile hidden Markov models [My Copy] Bioinformatics, Vol. 24, No. 22. (15 November 2008), pp. 2630-2631. by Martin Madera posted to alignment hmm msa proteins by djkt to the group iSEEM on 2008-11-05 16:15:23 as along with 3 people tonamswish j3xucite nuin
	Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis [My Copy] Science, Vol. 320, No. 5883. (20 June 2008), pp. 1632-1635. by Ari Loytynoja, Nick Goldman posted to phylogenetics alignment ploscb08 sequence by jlgreen to the group iSEEM on 2008-07-27 23:19:57 as along with 29 people and 2 groups memerman operon TRHvidsten BioNica cmzmasek timflutre pradiptaray alexeid marti bpcusack hpaces dinnes gjuggler djkt ArtemPankin phoenixzxl jago marck imtechnology aprasad zwang bmaust bpb michaelbarton Schmidtc AbnerCYH gulsacan emptyhb nuin Khavkin's lab Green Lab
	FastGroup: a program to dereplicate libraries of 16S rDNA sequences. [My Copy] BMC bioinformatics, Vol. 2 (2001) by V. Seguritan, F. Rohwer posted to 16s alignment method ploscb08 by djkt to the group iSEEM on 2008-07-24 18:23:05 as
	NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes [My Copy] Nucl. Acids Res., Vol. 34, No. suppl_2. (1 July 2006), pp. W394-399. by T. Z. Desantis, P. Hugenholtz, K. Keller, et al.E. L. Brodie, N. Larsen, Y. M. Piceno, R. Phan, G. L. Andersen posted to 16s alignment method ploscb08 webtool by djkt to the group iSEEM on 2008-07-24 18:20:03 as along with 5 people sim82 esyoun jmeppley nghoffma mcox
	An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP) [My Copy] PLoS ONE, Vol. 3, No. 7. (2 July 2008), e2566. by Dongying Wu, Amber Hartman, Naomi Ward, Jonathan A. Eisen posted to 16s alignment method phylogenetics ploscb08 by djkt to the group iSEEM on 2008-07-24 18:14:38 as along with 7 people and 3 groups Katje AaronDarling skembel sriesenfeld druvus vaulot skato_toyaku microbiology_nijmegen Papers recommended by the Roscoff Plankton Group Microbial-Ecology
	Bellerophon: a program to detect chimeric sequences in multiple sequence alignments [My Copy] Bioinformatics, Vol. 20, No. 14. (22 September 2004), pp. 2317-2319. by Thomas Huber, Geoffrey Faulkner, Philip Hugenholtz posted to alignment chimera method by djkt to the group iSEEM on 2008-07-24 18:12:09 as along with 3 people ajsferreira esyoun mcox

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sequence	279
protein	189
bioinformatics	186
structure	180
software	172
algorithm	164
multiple	113
evolution	110
phylogeny	91
genome	86
method	74
rna	72
msa	58
phylogenetics	55
methods	54
accuracy	52
algorithms	47
review	47
sequencing	42
statistics	42
database	32
tool	31
genomics	30
similarity	29
indel	27
ngs	27
dna	26
tools	26
microtubules	25
prediction	25
assembly	24
testing	24
clustering	23
face	23
registration	23
networks	22
proteins	22
homology	21
tree	21
comparison	20
2008	19
hmm	18
mapping	18
network	18
annotation	17
motif	17
short-read	17
comparative	16
molecular	16
snp	16
thesis	16
visualization	16
analysis	15
conserved	15
local	15
model	15
seq	15
structural	15
alignment_accuracy	14
bayesian	14
pathways	14
phylogenomics	14
2007	13
data-mining	13
databases	13
fold-evolution	13
modeling	13
noncoding	13
ontology	13
proteome	13
binding	12
gene	12
human	12
kinesin	12
major-proposal	12
multiple_sequence_alignment	12
nlp	12
orientation	12
pair_project	12
proj_assembly	12
sequence-alignment	12
short	12
solexa	12
comparative_genomics	11
conservation	11
dialogue	11
modelling	11
new_paper	11
nextgen	11
primer	11
read	11
sequences	11
electrostatic	10
evaluation	10
genetics	10
programming	10
proteomics	10
recognition	10
reference	10
scoring	10

Group: iSEEM - with tag alignment [20 articles] Export

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