operon's method [40 articles] Export

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

	Assisted assembly: how to improve a de novo genome assembly by using related species [My Copy] Genome Biology, Vol. 10, No. 8. (2009), R88. by Sante Gnerre, Eric Lander, Kerstin L. Toh, David Jaffe posted to method bioinformatics assembly by operon on 2009-09-30 00:56:51 as along with 17 people and 2 groups fstrozzi kiekyon torfinnnome dakelley jamselem err129 djkt darian APRegier thegoose danmaclean stajich natstreet neils druvus GustavoLacerda avilella Mycology Journal picks
	Improving phylogenetic analyses by incorporating additional information from genetic sequence databases [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2530-2536. by Li-Jung Liang, Robert E. Weiss, Benjamin Redelings, Marc A. Suchard posted to phylogenetics method by operon on 2009-09-27 16:52:19 as along with 4 people nuin robfsouza aprasad gjuggler
	PerM: efficient mapping of short sequencing reads with periodic full sensitive spaced seeds [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2514-2521. by Yangho Chen, Tade Souaiaia, Ting Chen posted to software method bioinformatics assembly by operon on 2009-09-27 16:52:09 as along with 8 people and 1 group darian dswan fishtank polivares n00c torfinnnome druvus natstreet BergmanLab
	A new method for revealing correlated mutations under the structural and functional constraints in proteins [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2506-2513. by Byung-Chul Lee, Dongsup Kim posted to structure protein method evolution constraints by operon on 2009-09-27 16:51:58 as along with 4 people qluo jlike zwang phoenixzxl
	Strong selective sweep associated with a transposon insertion in Drosophila simulans [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 101, No. 6. (10 February 2004), pp. 1626-1631. by Todd A. Schlenke, David J. Begun posted to transposon simulation phylogenetics method evolution coalescence by operon on 2009-09-18 21:21:18 as along with 3 people and 1 group gwallau penka timflutre Nie
	Controlling the False-Positive Rate in Multilocus Genome Scans for Selection [My Copy] Genetics, Vol. 175, No. 2. (1 February 2007), pp. 737-750. by Kevin R. Thornton, Jeffrey D. Jensen posted to transposon simulation phylogenetics method evolution coalescence by operon on 2009-09-18 21:21:14 as along with 2 people ilyashl renewang
	Simulation of DNA sequence evolution under models of recent directional selection [My Copy] Brief Bioinform, Vol. 10, No. 1. (24 December 2008), pp. bbn048-96. by Yuseob Kim, Thomas Wiehe posted to transposon simulation phylogenetics method evolution coalescence by operon on 2009-09-18 21:20:58 as along with 3 people ilyashl druvus nuin
	Family relationships: should consensus reign?--consensus clustering for protein families [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007), pp. e71-76. by Macha Nikolski, David J. Sherman posted to protein method genomics clustering bioinformatics by operon on 2009-08-31 20:41:55 as along with 1 person phoenixzxl
	Phylogenetic profiles reveal evolutionary relationships within the “twilight zone” of sequence similarity [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 36. (9 September 2008), pp. 13474-13479. by Gue S. Chang, Yoojin Hong, Kyung D. Ko, et al.Gaurav Bhardwaj, Edward C. Holmes, Randen L. Patterson, Damian B. van Rossum posted to similarity phylogenetics ortholog method homology evolution algorithm by operon on 2009-08-29 20:09:23 as along with 2 people marck bpcusack
	Nonadaptive Explanations for Signatures of Partial Selective Sweeps in Drosophila [My Copy] Mol Biol Evol, Vol. 25, No. 6. (1 June 2008), pp. 1025-1042. by J. Michael Macpherson, Josefa Gonzalez, Daniela M. Witten, et al.Jerel C. Davis, Noah A. Rosenberg, Aaron E. Hirsh, Dmitri A. Petrov posted to transposon simulation selection phylogenetics method evolution drosophila coalescence adaptation by operon on 2009-08-29 20:00:13 as along with 2 people PetrovLab caseybrown
	An approach of orthology detection from homologous sequences under minimum evolution [My Copy] Nucl. Acids Res., Vol. 36, No. 17. (1 October 2008), e110. by Kyung M. Kim, Samsun Sung, Gustavo Caetano-Anolles, Jae Y. Han, Heebal Kim posted to software selection phylogenetics method genomics evolution bioinformatics by operon on 2009-08-27 15:26:33 as along with 2 people Neeperando barriot
	Darwinian and demographic forces affecting human protein coding genes [My Copy] Genome Research, Vol. 19, No. 5. (1 May 2009), pp. 838-849. by Rasmus Nielsen, Melissa J. Hubisz, Ines Hellmann, et al.Dara Torgerson, Aida M. Andrés, Anders Albrechtsen, Ryan Gutenkunst, Mark D. Adams, Michele Cargill, Adam Boyko, Amit Indap, Carlos D. Bustamante, Andrew G. Clark posted to software selection phylogenetics method genomics evolution bioinformatics by operon on 2009-08-27 15:26:04 as along with 3 people daveGerrard djkt psique
	Signals of recent positive selection in a worldwide sample of human populations [My Copy] Genome Research, Vol. 19, No. 5. (May 2009), pp. 826-837. by Joseph K. Pickrell, Graham Coop, John Novembre, et al.Sridhar Kudaravalli, Jun Z. Li, Devin Absher, Balaji S. Srinivasan, Gregory S. Barsh, Richard M. Myers, Marcus W. Feldman, Jonathan K. Pritchard posted to software selection phylogenetics method genomics evolution bioinformatics by operon on 2009-08-27 15:25:58 as along with 7 people jandot daforerog djkt ilyashl jbhiatt MarkFiers shikin
	Workflow based framework for life science informatics [My Copy] Computational Biology and Chemistry, Vol. 31, No. 5-6. (October 2007), pp. 305-319. by Abhishek Tiwari, Arvind K. T. Sekhar posted to software method bioinformatics by operon on 2009-08-27 15:25:42 as along with 10 people and 1 group abhishek_tiwari pekrau andrewclegg egonw Thaverkamp druvus zufar nicklynch guhjy moborg Orengo Group Journal Picks
	The difficulty of avoiding false positives in genome scans for natural selection [My Copy] Genome Research, Vol. 19, No. 5. (May 2009), pp. 922-933. by Swapan Mallick, Sante Gnerre, Paul Muller, David Reich posted to software selection phylogenetics method genomics evolution bioinformatics by operon on 2009-08-27 15:25:12 as along with 4 people dakelley gjuggler djkt jbhiatt
	Choosing BLAST options for better detection of orthologs as reciprocal best hits [My Copy] Bioinformatics, Vol. 24, No. 3. (1 February 2008), pp. 319-324. by Gabriel Moreno-Hagelsieb, Kristen Latimer posted to software ortholog method bioinformatics by operon on 2009-08-27 15:24:32 as along with 10 people treangen druvus natstreet cdeane guhjy cjeans winterschlaefer renatomilani mclarenv cerca
	Metrics for phylogenetic networks I: generalizations of the Robinson-Foulds metric. [My Copy] IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM, Vol. 6, No. 1. (r 2009), pp. 46-61. by Gabriel Cardona, Mercè Llabrés, Francesc Rosselló, Gabriel Valiente posted to software phylogenetics network method algorithm by operon on 2009-08-24 00:17:27 as
	MUST: A system for identification of miniature inverted-repeat transposable elements and applications to Anabaena variabilis and Haloquadratum walsbyi [My Copy] Gene, Vol. 436, No. 1-2. (01 May 2009), pp. 1-7. by Yong Chen, Fengfeng Zhou, Guojun Li, Ying Xu posted to transposon software mite method bioinformatics by operon on 2009-08-12 09:32:01 as
	Combining Pattern Classifiers: Methods and Algorithms [My Copy] (01 July 2004) by Ludmila I. Kuncheva posted to analysis classification clustering method multivariate statistics by operon on 2009-08-03 09:31:05 as along with 6 people and 1 group rsantana sdvillal AbnerCYH napvasconcelos drivard abellogin CSBBGraphTheory
	Learning classifier systems: a survey [My Copy] Soft Comput., Vol. 11, No. 11. (1 September 2007), pp. 1065-1078. by Olivier Sigaud, Stewart W. Wilson posted to analysis classification clustering method multivariate statistics by operon on 2009-08-03 09:30:56 as along with 4 people and 1 group bsilverthorn yeminjiao mbehdad sharshera SCAL
	On comparing classifiers: Pitfalls to avoid and a recommended approach [My Copy] Data Mining and Knowledge Discovery, Vol. 1 (1997), pp. 317-327. by Steven L. Salzberg posted to analysis classification clustering method multivariate statistics by operon on 2009-08-03 09:30:47 as along with 1 person Passerby
	Bayesian Network Classifiers [My Copy] Mach. Learn., Vol. 29, No. 2-3. (1997), pp. 131-163. by Nir Friedman, Dan Geiger, Moises Goldszmidt posted to analysis bayes classification clustering method multivariate statistics by operon on 2009-08-03 09:30:37 as along with 2 people yeminjiao robotact
	Comparing Bayesian Network Classifiers [My Copy] pp. 101-108. by Jie Cheng, Russell Greiner posted to analysis bayes classification clustering method multivariate statistics by operon on 2009-08-03 09:30:31 as along with 2 people and 3 groups yeminjiao AbelThorne Neuroscience Computational-Neurobiology Inserm-U455
	Probing the Flexibility of Large Conformational Changes in Protein Structures through Local Perturbations [My Copy] PLoS Comput Biol, Vol. 5, No. 4. (3 April 2009), e1000343. by Bosco K. Ho, David A. Agard posted to algorithm dynamics method protein simulation structure by operon on 2009-07-13 05:12:56 as along with 5 people and 3 groups skywalkerus02 dimka sobolevnrm barry bourby baker-group structural_bioinformatics McCammon
	ResBoost: characterizing and predicting catalytic residues in enzymes [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (27 June 2009), 197. by Ron Alterovitz, Aaron Arvey, Sriram Sankararaman, Carolina Dallett, Yoav Freund, Kimmen Sjolander posted to annotation bioinformatics enzymes functional method protein software structure by operon on 2009-07-03 09:25:28 as along with 2 people and 1 group vpenelle sillitoe Orengo Group 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 bioinformatics evolution method phylogenetics by operon on 2009-07-02 21:03:28 as along with 26 people and 4 groups gjuggler parnell kinestetika robertrentzsch xianjun gdb jbhiatt stajich biomcgary kieran101 zwang michaelbarton vingron tatman303 hryk lizbiogen pkonings ppgardne dokky aprasad timflutre inquil TRHvidsten djkt fenghezi phoenixzxl Orengo Group Journal Picks Mycology Journal picks iSEEM
	Identification of transposable elements using multiple alignments of related genomes [My Copy] Genome Research, Vol. 16, No. 2. (February 2006), pp. 260-270. by Anat Caspi, Lior Pachter posted to evolution genomics method transposon by operon on 2009-07-01 08:32:25 as along with 4 people orzenil timflutre urgi yoanjacquemin
	SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing. [My Copy] Genome research, Vol. 17, No. 11. (November 2007), pp. 1697-1706. by J. C. Dohm, C. Lottaz, T. Borodina, H. Himmelbauer posted to assembly bioinformatics genomics method software by operon on 2009-06-30 23:56:45 as along with 16 people and 2 groups n00c robsyme dakelley acn druvus nmohelli natstreet timflutre stajich ghattem azazello GustavoLacerda niallhaslam flexer jwhitney iris42 DeNovoAssembly-SIMR Mycology
	The Sequence Alignment/Map format and SAMtools [My Copy] Bioinformatics, Vol. 25, No. 16. (15 August 2009), pp. 2078-2079. by Heng Li, Bob Handsaker, Alec Wysoker, et al.Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin, 1000 Genome Project Data Processing Subgroup posted to assembly bioinformatics genomics method software by operon on 2009-06-30 23:56:41 as along with 25 people and 2 groups seb1 heliopais urgi idonaldson GustavoLacerda stubrown cassj kshameer ciax polivares carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai farhat AlexBateman chrisamiller nuin n00c natstreet sandfire druvus BergmanLab Journal picks
	Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing [My Copy] Genome Research, Vol. 19, No. 7. (4 July 2009), pp. 1309-1315. by Wei Qu, Shin-ichi Hashimoto, Shinichi Morishita posted to assembly bioinformatics genomics method software by operon on 2009-06-30 23:56:35 as along with 7 people druvus n00c megraw nlapalu dakelley djkt natstreet
	Velvet: algorithms for de novo short read assembly using de Bruijn graphs. [My Copy] Genome research, Vol. 18, No. 5. (18 May 2008), pp. 821-829. by Daniel R. Zerbino, Ewan Birney posted to assembly bioinformatics genomics method software by operon on 2009-06-30 23:56:26 as along with 36 people and 3 groups azazello ajbattle jmanning2k n00c carlk pachorip APRegier jbhiatt jonilaserson jahwa jsatkosk sandfire thegoose2 katholt robsyme djkt hpaces AaronDarling mhz idoerg jmcq dswan dakelley jasontsai acn druvus natstreet nmohelli stajich farhat iris42 tharris Neeperando sharpton GustavoLacerda gdb Bioinformatics DeNovoAssembly-SIMR Mycology
	ALLPATHS: De novo assembly of whole-genome shotgun microreads [My Copy] Genome Research, Vol. 18, No. 5. (13 May 2008), pp. 810-820. by Jonathan Butler, Iain MacCallum, Michael Kleber, et al.Ilya A. Shlyakhter, Matthew K. Belmonte, Eric S. Lander, Chad Nusbaum, David B. Jaffe posted to assembly bioinformatics genomics method software by operon on 2009-06-30 23:55:03 as along with 22 people and 1 group n00c carlk jmanning2k APRegier pachorip jonilaserson thegoose2 natstreet AaronDarling mhz dakelley druvus stajich azazello hpaces tharris jwhitney iris42 Neeperando sharpton GustavoLacerda GeeSharpMinor Mycology
	jModelTest: Phylogenetic Model Averaging [My Copy] Mol Biol Evol, Vol. 25, No. 7. (1 July 2008), pp. 1253-1256. by David Posada posted to bioinformatics method model phylogenetics software by operon on 2009-06-30 23:43:57 as along with 4 people Garamonfok BioNica druvus aprasad
	A phylogenetic Gibbs sampler that yields centroid solutions for cis-regulatory site prediction [My Copy] Bioinformatics, Vol. 23, No. 14. (15 July 2007), pp. 1718-1727. by Lee A. Newberg, William A. Thompson, Sean Conlan, Thomas M. Smith, Lee A. McCue, Charles E. Lawrence posted to genomics method patterns prediction regulation software transcription by operon on 2009-06-29 21:47:09 as along with 7 people and 1 group vingron Dulce Mehlhorn dpollard cjeans sconlan siebert EisenLab
	RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2688-2690. by Alexandros Stamatakis posted to algorithm bioinformatics evolution method phylogenetics software by operon on 2009-06-01 01:13:06 as along with 7 people hryk jpsullivan anisbet aprasad druvus johanviklund dmp
	Efficient Likelihood Computations with Nonreversible Models of Evolution -- Boussau and Gouy 55 (5): 756 -- Systematic Biology [My Copy] posted to algorithm bioinformatics evolution method phylogenetics software by operon on 2009-06-01 01:06:03 as
	Phylogenetic Supermatrix Analysis of GenBank Sequences from 2228 Papilionoid Legumes -- McMahon and Sanderson 55 (5): 818 -- Systematic Biology [My Copy] posted to algorithm bioinformatics evolution method phylogenetics software by operon on 2009-06-01 01:05:38 as
	MACHOS: Markov clusters of homologous subsequences. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008) by S. Wong, M. A. Ragan posted to bioinformatics doctorate homology method ortholog by operon on 2009-04-08 04:56:04 as along with 4 people AaronDarling treangen nuin gulkur
	Single-Molecule DNA Sequencing of a Viral Genome [My Copy] Science, Vol. 320, No. 5872. (4 April 2008), pp. 106-109. by Timothy D. Harris, Phillip R. Buzby, Hazen Babcock, et al.Eric Beer, Jayson Bowers, Ido Braslavsky, Marie Causey, Jennifer Colonell, James Dimeo, J. William Efcavitch, Eldar Giladi, Jaime Gill, John Healy, Mirna Jarosz, Dan Lapen, Keith Moulton, Stephen R. Quake, Kathleen Steinmann, Edward Thayer, Anastasia Tyurina, Rebecca Ward, Howard Weiss, Zheng Xie posted to genomics method by operon on 2008-04-11 03:31:00 as along with 24 people and 3 groups haisent pachorip katholt alexknight jbhiatt JonD lisa1 mkikkawa frohike katiehumphry dchughes samjlord neils zwang cabbagezs kinestetika benlin caseybrown kjglennie melting austin ilyaf vmarshal guhjy moernerlab Microbial-Ecology microbiology_nijmegen
	Empirical comparison of ab initio repeat finding programs [My Copy] Nucl. Acids Res., Vol. 36, No. 7. (1 April 2008), pp. 2284-2294. by Surya Saha, Susan Bridges, Zenaida V. Magbanua, Daniel G. Peterson posted to transposon software repeats method evolution bioinformatics algorithm by operon on 2008-03-10 00:38:43 as along with 10 people thegoose2 orzenil natstreet druvus treangen timflutre wisdom_love Ema GustavoLacerda tharris

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

evolution	811
master	795
transposon	464
phylogenetics	416
genomics	387
selection	238
reduction	220
bioinformatics	214
mutation	206
software	176
mycoplasma	98
doctorate	87
prokaryote	73
drosophila	65
retroelement	61
arthropod	59
protein	52
structure	50
algorithm	42
method	40
genometrics	38
dna	35
horizontal_transfer	35
ortholog	33
annotation	31
bacteria	31
database	31
immunology	31
pathogenics	31
repeats	30
symbiosis	30
codon_bias	29
rearrangements	28
genetics	27
statistics	26
analysis	25
biotechnology	23
expression	23
sequencing	23
clustering	22
molecular	20
classification	19
gene	19
comparative	18
transcription	18
assembly	17
insect	16
similarity	16
social	16
bayes	15
biophysics	15
systems_biology	15
data_mining	14
microarray	14
population	14
biodiversity	13
cell	13
molecular_clock	13
ontology	13
chromosome	12
computational	12
hardware	12
proteomics	12
search	12
ai	11
alignment	11
eukaryotic	11
functional	11
human	11
science	11
homology	10
transcriptome	10
dynamics	9
literature	9
metagenomics	9
modelling	9
network	9
recombination	9
regulation	9
rna	9
simulation	9
cancer	8
visualization	8
development	7
duplication	7
enzymes	7
molecule	7
multivariate	7
3d	6
adaptation	6
biofuels	6
membrane	6
microbiology	6
patterns	6
plant	6
data	5
microscopy	5
programming	5
pseudogene	5
repair	5
review	5
sex	5
snp	5
synthesis	5
chemistry	4
coalescence	4
drug_discovery	4
fluorescence	4
interaction	4
methylation	4
model	4
motif	4
pathway	4
pharmacogenomics	4
quantitative	4
strand	4
virus	4
alu	3
biochemistry	3
biotech	3
cladistics	3
diagnostics	3
firmicute	3
fret	3
genome	3
go	3
health	3
hmm	3
infection	3
intron	3
mcite	3
mite	3
nanotechnology	3
neutralism	3
paralog	3
physics	3
promoter	3
proteome	3
python	3
quantum	3
r	3
repeat	3
selectionism	3
tandem	3
text_mining	3
vaccine	3
web	3
2d	2
454	2
biology	2
circadian	2
design	2
divergence_times	2
docking	2
energy	2
epigenomics	2
est	2
exon	2
experimental	2
folding	2
fuelcell	2
genomic	2
haplotype	2
helitron	2
mathematics	2
metabolic	2
noncoding	2
optimization	2
p6	2
parallel	2
pcr	2
pharma	2
philosophy	2
polymorphism	2
prediction	2
qsar	2
research	2
scientists	2
screening	2
semantics	2
size	2
splicing	2
svm	2
synteny	2
theory	2
thesis	2
translation	2
xml	2
adaptive_evolution	1
alignment_methods	1
ancient_dna	1
array	1
behaviour	1
bibtex	1
chaos	1
chirality	1
citation_count	1
collaboration	1
constraints	1
cool	1
database_search	1
education	1
endophytes	1
episome	1
framework	1
game	1
genes	1
genotypes	1
genotyping	1
gpgpu	1
grammars	1
graph	1
gwa	1
high-throughput	1
hmms	1
hpc	1
human_genome	1
hydrogen	1
imprinting	1
integration	1
interference	1
key	1
large-scale	1
laser	1
ligand	1
lipoprotein	1
maximum-likelihood	1
mcmc	1
mechanotransduction	1
medicine	1
metaproteomics	1
methods	1
microfluidic	1
misc	1
molecular_evolution	1
motif_discovery	1
nlp	1
nmr	1
noncoding_regions	1
paper_ideas	1
parsimony	1
parsing	1
pedigree	1
phylogenetic_footprint	1
phytoplasma	1
plasticity	1
population_genetics	1
probability_distribution	1
psychology	1
receptor	1
replication	1
retraction	1
revision_control	1
sage	1
sensor	1
signal	1
spectroscopy	1
spot	1
stm	1
stress	1
substitution_rates	1
subversion	1
symbiont	1
taxonomy	1
thermodynamics	1
tools	1
transcription_factors	1
transposons	1
tree_topology	1
tree_visualization	1
vertebrate	1
web_service	1

operon's method [40 articles] Export

operon's tags