operon's doctorate [87 articles] Export

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	Transposable Elements and Factors Influencing their Success in Eukaryotes [My Copy] J Hered, Vol. 100, No. 5. (7 August 2009), pp. esp065-655. by Ellen J. Pritham posted to transposon selection phylogenetics evolution doctorate by operon on 2009-08-16 01:03:15 as along with 3 people diamantis aprasad gwallau
	Augmented training of hidden Markov models to recognize remote homologs via simulated evolution [My Copy] Bioinformatics, Vol. 25, No. 13. (1 July 2009), pp. 1602-1608. by Anoop Kumar, Lenore Cowen posted to doctorate hmm homology search by operon on 2009-05-20 14:52:52 as along with 2 people and 2 groups ollieredfernwork AlexBateman Orengo Group Journal Picks Journal picks
	Divergence of the yellow gene between Drosophila melanogaster and D. subobscura: recombination rate, codon bias and synonymous substitutions. [My Copy] Genetics, Vol. 147, No. 1. (September 1997), pp. 165-175. by A. Munté, M. Aguadé, C. Segarra posted to arthropod codon_bias doctorate drosophila genomics by operon on 2009-05-08 05:29:30 as
	How can the low levels of DNA sequence variation in regions of the drosophila genome with low recombination rates be explained? [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 91, No. 15. (19 July 1994), pp. 6815-6818. by R. R. Hudson posted to arthropod codon_bias doctorate drosophila genomics by operon on 2009-05-08 05:29:16 as
	Identification of expressed transposable element insertions in the sequenced genome of Drosophila melanogaster [My Copy] Gene, Vol. 439, No. 1-2. (15 June 2009), pp. 55-62. by Marc Deloger, Florence M. G. Cavalli, Emmanuelle Lerat, Christian Biémont, Marie-France Sagot, Cristina Vieira posted to doctorate drosophila transcription transcriptome transposon by operon on 2009-05-06 18:52:30 as along with 1 person gwallau
	FlyPhy: a phylogenomic analysis platform for Drosophila genes and gene families [My Copy] BMC Bioinformatics, Vol. 10 (25 April 2009), 123. by Jinyu, Xiaokun Li posted to arthropod doctorate drosophila gene genomics phylogenetics by operon on 2009-04-29 04:19:21 as along with 2 people and 2 groups gwallau stajich LabDros Mycology
	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
	Does Selection against Transcriptional Interference Shape Retroelement-Free Regions in Mammalian Genomes? [My Copy] PLoS ONE, Vol. 3, No. 11. (19 November 2008), e3760. by Tobias Mourier, Eske Willerslev posted to retroelement doctorate genomics transcription transcriptome transposon by operon on 2008-11-29 03:27:19 as along with 3 people and 1 group oatelet cisevol bpcusack BergmanLab
	Retrotransposons revisited: the restraint and rehabilitation of parasites. [My Copy] Cell, Vol. 135, No. 1. (3 October 2008), pp. 23-35. by John L. Goodier, Haig H. Kazazian posted to retroelement doctorate evolution review transposon by operon on 2008-11-04 10:20:46 as along with 4 people dchughes diamantis gwallau sebastien_vigneau
	Phylogenetic analysis of mRNA polyadenylation sites reveals a role of transposable elements in evolution of the 3'-end of genes [My Copy] Nucl. Acids Res., Vol. 36, No. 17. (30 August 2008), pp. gkn540-5590. by Ju Y. Lee, Zhe Ji, Bin Tian posted to doctorate evolution expression gene phylogenetics transcription transposon by operon on 2008-11-04 10:13:59 as along with 2 people inesdesantiago rschulz
	Repetitive DNA in the pea (Pisum sativum L.) genome: comprehensive characterization using 454 sequencing and comparison to soybean and Medicago truncatula [My Copy] BMC Genomics, Vol. 8 (21 November 2007), 427. by Jiri Macas, Pavel Neumann, Alice Navratilova posted to retroelement doctorate plant sequencing transposon by operon on 2008-10-30 18:32:11 as along with 1 person and 1 group orzenil BergmanLab
	Widespread Lateral Gene Transfer from Intracellular Bacteria to Multicellular Eukaryotes [My Copy] Science, Vol. 317, No. 5845. (21 September 2007), pp. 1753-1756. by Julie C. Hotopp, Michael E. Clark, Deodoro C. S. G. Oliveira, et al.Jeremy M. Foster, Peter Fischer, Monica C. Torres, Jonathan D. Giebel, Nikhil Kumar, Nadeeza Ishmael, Shiliang Wang, Jessica Ingram, Rahul V. Nene, Jessica Shepard, Jeffrey Tomkins, Stephen Richards, David J. Spiro, Elodie Ghedin, Barton E. Slatko, Herve Tettelin, John H. Werren posted to arthropod bacteria doctorate drosophila genomics horizontal_transfer by operon on 2008-10-30 17:21:39 as along with 10 people and 2 groups kmachemer treangen dpollard bluto zwang emmahe lp2 wrowell paulschlesinger Patola EisenLab Cline_lab
	Evolution of the Gypsy endogenous retrovirus in the Drosophila melanogaster subgroup. [My Copy] Molecular biology and evolution, Vol. 17, No. 6. (June 2000), pp. 908-914. by C. Terzian, C. Ferraz, J. Demaille, A. Bucheton posted to retroelement arthropod doctorate evolution phylogenetics transposon by operon on 2008-10-30 15:36:48 as
	Medfly transposable elements: diversity, evolution, genomic impact and possible applications. [My Copy] Insect biochemistry and molecular biology, Vol. 34, No. 2. (February 2004), pp. 139-148. by L. M. Gomulski, C. Torti, V. Murelli, M. Bonizzoni, G. Gasperi, A. R. Malacrida posted to retroelement arthropod doctorate evolution phylogenetics transposon by operon on 2008-10-30 15:36:07 as along with 1 person brant
	Molecular structure of yoyo, a gypsy-like retrotransposon from the mediterranean fruit fly, Ceratitis capitata. [My Copy] Genetica, Vol. 101, No. 3., pp. 167-178. by Q. Zhou, D. S. Haymer posted to retroelement arthropod doctorate evolution phylogenetics transposon by operon on 2008-10-30 15:35:53 as
	Evolution and phylogeny of insect endogenous retroviruses. [My Copy] BMC evolutionary biology, Vol. 1 (2001) by C. Terzian, A. Pélisson, A. Bucheton posted to retroelement arthropod doctorate evolution phylogenetics transposon by operon on 2008-10-30 15:35:36 as
	A comparison of the human and chimpanzee olfactory receptor gene repertoires [My Copy] Genome Res., Vol. 15, No. 2. (1 February 2005), pp. 224-230. by Yoav Gilad, Orna Man, Gustavo Glusman posted to doctorate evolution genomics selection by operon on 2008-10-30 13:55:48 as along with 5 people and 1 group GustavoG balicea yama_tah penka bpcusack Nie
	A new sequence distance measure for phylogenetic tree construction [My Copy] Bioinformatics, Vol. 19, No. 16. (1 November 2003), pp. 2122-2130. by Hasan H. Otu, Khalid Sayood posted to algorithm bioinformatics doctorate evolution phylogenetics sequencing by operon on 2008-10-30 13:55:12 as along with 1 person treangen
	kakusan: a computer program to automate the selection of a nucleotide substitution model and the configuration of a mixed model on multilocus data [My Copy] Molecular Ecology Notes, Vol. 0, No. 0. (0000), pp. ???-???. by Akifumi S. Tanabe posted to bioinformatics dna doctorate evolution selection software by operon on 2008-10-30 13:53:52 as along with 1 person akifumi
	caBIG VISDA: modeling, visualization, and discovery for cluster analysis of genomic data [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Yitan Zhu, Huai Li, David Miller, et al.Zuyi Wang, Jianhua Xuan, Robert Clarke, Eric Hoffman, Yue Wang posted to clustering data_mining doctorate genomics statistics by operon on 2008-10-30 13:44:02 as along with 3 people sebastien_vigneau rdiaz nuin
	Sequence divergence, functional constraint, and selection in protein evolution. [My Copy] Annual review of genomics and human genetics, Vol. 4, No. 1. (2003), pp. 213-235. by Justin C. Fay, Chung-I I. Wu posted to doctorate evolution phylogenetics protein selection by operon on 2008-10-30 13:41:22 as along with 3 people and 1 group ramiro2k renewang dmc Durbin group
	Computing Ka and Ks with a consideration of unequal transitional substitutions [My Copy] BMC Evolutionary Biology, Vol. 6 (02 June 2006), 44. by Zhang Zhang, Jun Li, Jun Yu posted to doctorate evolution genomics phylogenetics selection by operon on 2008-10-30 13:40:18 as along with 1 person marti
	Gene length and codon usage bias in Drosophila melanogaster, Saccharomyces cervisiae and Escherichia coli [My Copy] Nucl. Acids Res., Vol. 26, No. 19. (1 October 1998), 4540. by A. Marin, F. Gonzalez, G. Gutierrez, J. L. Oliver posted to arthropod codon_bias doctorate drosophila evolution gene genometrics genomics phylogenetics by operon on 2008-10-30 13:38:21 as
	SCaFoS: a tool for Selection, Concatenation and Fusion of Sequences for phylogenomics [My Copy] BMC Evolutionary Biology, Vol. 7, No. Suppl 1. (2007) by Beatrice Roure, Naiara R. Ezpeleta, Herve Philippe posted to doctorate evolution genomics phylogenetics software by operon on 2008-10-30 12:51:44 as along with 7 people calderonv treangen natstreet druvus aprasad akifumi dmp
	The transposable elements of the Drosophila melanogaster euchromatin: a genomics perspective. [My Copy] Genome Biol, Vol. 3, No. 12. (2002) by J. S. Kaminker, C. M. Bergman, B. Kronmiller, et al.J. Carlson, R. Svirskas, S. Patel, E. Frise, D. A. Wheeler, S. E. Lewis, G. M. Rubin, M. Ashburner, S. E. Celniker posted to arthropod doctorate drosophila evolution genomics phylogenetics transposon by operon on 2008-10-27 21:39:15 as along with 4 people and 1 group hrogers gwallau briann mimulus_99 LabDros
	Combined Evidence Annotation of Transposable Elements in Genome Sequences [My Copy] PLoS Comput Biol, Vol. 1, No. 2. (29 July 2005), e22. by Hadi Quesneville, Casey M. Bergman, Olivier Andrieu, et al.Delphine Autard, Danielle Nouaud, Michael Ashburner, Dominique Anxolabehere posted to annotation doctorate evolution genomics transposon by operon on 2008-10-27 21:38:06 as along with 12 people and 2 groups GustavoLacerda orzenil natstreet treangen briann aprasad dpollard timflutre stajich urgi yoanjacquemin ArtemPankin LabDros EisenLab
	Predicting functional divergence in protein evolution by site-specific rate shifts. [My Copy] Trends in biochemical sciences, Vol. 27, No. 6. (June 2002), pp. 315-321. by E. A. Gaucher, X. Gu, M. M. Miyamoto, S. A. Benner posted to doctorate evolution phylogenetics selection by operon on 2008-10-24 17:25:35 as
	Evolutionary Genomics: Transdomain Gene Transfers [My Copy] Current Biology, Vol. 17, No. 21. (6 November 2007), pp. R935-R936. by Seth R. Bordenstein posted to bacteria doctorate evolution genomics horizontal_transfer phylogenetics by operon on 2008-10-22 13:12:52 as along with 4 people and 1 group skhadar mblwhoi zwang hpaces LabDros
	Gene Family Evolution across 12 Drosophila Genomes [My Copy] PLoS Genet, Vol. 3, No. 11. (9 November 2007), e197. by Matthew W. Hahn, Mira V. Han, Sang-Gook Han posted to arthropod comparative doctorate drosophila evolution gene genomics phylogenetics by operon on 2008-10-21 21:54:09 as along with 5 people and 2 groups zhlei druvus indigoviolet proulx djkt LabDros EisenLab
	Five Drosophila Genomes Reveal Nonneutral Evolution and the Signature of Host Specialization in the Chemoreceptor Superfamily [My Copy] Genetics, Vol. 177, No. 3. (1 November 2007), pp. 1395-1416. by Carolyn S. Mcbride, Roman J. Arguello, Brian C. O'Meara posted to arthropod codon_bias doctorate drosophila evolution genomics phylogenetics selection by operon on 2008-10-21 05:14:52 as along with 1 person smbe2008
	Mutation-Selection Models of Codon Substitution and Their Use to Estimate Selective Strengths on Codon Usage. [My Copy] Mol Biol Evol (3 January 2008) by Ziheng Yang, Rasmus Nielsen posted to codon_bias doctorate evolution genomics phylogenetics selection by operon on 2008-10-21 05:14:28 as along with 4 people and 1 group BioNica stajich cjeans gjuggler Mycology
	Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy. [My Copy] Genetics, Vol. 136, No. 3. (March 1994), pp. 927-935. by H. Akashi posted to arthropod codon_bias doctorate drosophila evolution genomics phylogenetics selection by operon on 2008-10-21 05:13:55 as along with 4 people codonusage hrogers bjorns skumagai
	Evolution of codon usage bias in Drosophila [My Copy] PNAS, Vol. 94, No. 15. (22 July 1997), pp. 7784-7790. by Jeffrey R. Powell, Etsuko N. Moriyama posted to arthropod codon_bias doctorate drosophila evolution genomics phylogenetics selection by operon on 2008-10-21 04:56:43 as along with 3 people hrogers gpalidwor skumagai
	Patterns of Mutation and Selection at Synonymous Sites in Drosophila [My Copy] Mol Biol Evol, Vol. 24, No. 12. (1 December 2007), pp. 2687-2697. by Nadia D. Singh, Bauer, Melissa J. Hubisz, Rasmus Nielsen, Charles F. Aquadro posted to arthropod doctorate drosophila evolution genomics phylogenetics selection by operon on 2008-10-21 04:56:20 as
	Patterns of Synonymous Codon Usage in Drosophila melanogaster Genes With Sex-Biased Expression [My Copy] Genetics, Vol. 170, No. 4. (1 August 2005), pp. 1691-1700. by Tina M. Hambuch, John Parsch posted to arthropod codon_bias doctorate drosophila evolution genomics phylogenetics selection by operon on 2008-10-21 04:55:26 as along with 2 people and 1 group CharlesM penka Nie
	A piRNA pathway primed by individual transposons is linked to de novo DNA methylation in mice. [My Copy] Molecular cell, Vol. 31, No. 6. (26 September 2008), pp. 785-799. by Alexei A. Aravin, Ravi Sachidanandam, Deborah Bourc'his, et al.Christopher Schaefer, Dubravka Pezic, Katalin Fejes F. Toth, Timothy Bestor, Gregory J. Hannon posted to cell dna doctorate methylation molecular transposon by operon on 2008-10-19 19:14:55 as along with 1 person and 1 group tonamswish LabDros
	Can RNA selection pressure distort the measurement of Ka/Ks? [My Copy] Gene, Vol. 370 (29 March 2006), pp. 1-5. by Y. Xing, C. Lee posted to doctorate evolution genomics rna selection by operon on 2008-10-15 17:14:51 as along with 1 person bpcusack
	The quest for orthologs: finding the corresponding gene across genomes [My Copy] Trends in Genetics, Vol. 24, No. 11. (24 November 2008), pp. 539-551. by A. Kuzniar, R. Vanham, S. Pongor, J. Leunissen posted to doctorate evolution genomics ortholog by operon on 2008-10-15 14:13:06 as along with 13 people kiekyon maximilianh Thaverkamp orzenil kshameer carlk guhjy natstreet druvus treangen skembel gjuggler dchughes
	Retrotransposons and regulatory suites. [My Copy] Bioessays, Vol. 27, No. 2. (February 2005), pp. 122-125. by J. A. Shapiro posted to doctorate genomics transposon by operon on 2008-05-13 14:45:52 as along with 5 people HugoMarcelo LeightonP briann mcphee kiara
	Why repetitive DNA is essential to genome function. [My Copy] Biological reviews of the Cambridge Philosophical Society, Vol. 80, No. 2. (May 2005), pp. 227-250. by J. A. Shapiro, R. von Sternberg posted to doctorate genomics transposon by operon on 2008-05-13 14:45:44 as
	How repeated retroelements format genome function. [My Copy] Cytogenetic and genome research, Vol. 110, No. 1-4. (2005), pp. 108-116. by R. von Sternberg, J. A. Shapiro posted to doctorate genomics transposon by operon on 2008-05-13 14:45:41 as along with 2 people HugoMarcelo kiara
	Adaptive genic evolution in the Drosophila genomes. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 104, No. 7. (13 February 2007), pp. 2271-2276. by J. A. Shapiro, W. Huang, C. Zhang, et al.M. J. Hubisz, J. Lu, D. A. Turissini, S. Fang, H. Y. Wang, R. R. Hudson, R. Nielsen, Z. Chen, C. I. Wu posted to doctorate genomics transposon by operon on 2008-05-13 14:45:38 as along with 3 people cpwardell emptyhb skumagai
	Bacteria are small but not stupid: cognition, natural genetic engineering and socio-bacteriology [My Copy] Studies in History and Philosophy of Science Part C: Studies in History and Philosophy of Biological and Biomedical Sciences, Vol. 38, No. 4. (December 2007), pp. 807-819. by J. A. Shapiro posted to doctorate genomics master transposon by operon on 2008-05-13 14:45:34 as along with 1 person bayesian
	A 21st century view of evolution: genome system architecture, repetitive DNA, and natural genetic engineering. [My Copy] Gene, Vol. 345, No. 1. (17 January 2005), pp. 91-100. by J. A. Shapiro posted to doctorate genomics transposon by operon on 2008-05-13 14:43:59 as along with 2 people N0131826 rebeccamancy
	Transposable elements and the dynamic somatic genome [My Copy] Genome Biology, Vol. 8, No. Suppl 1. (2007), S5. by Lara Collier, David Largaespada posted to doctorate evolution genomics transposon by operon on 2008-05-13 14:39:28 as along with 1 person gwallau
	Transposable element orientation bias in the Drosophila melanogaster genome. [My Copy] J Mol Evol, Vol. 61, No. 6. (December 2005), pp. 733-741. by A. D. Cutter, J. M. Good, C. T. Pappas, M. A. Saunders, D. M. Starrett, T. J. Wheeler posted to doctorate by operon on 2008-04-17 06:18:02 as along with 1 person and 1 group penka Nie
	A New Test for Selection Applied to Codon Usage in Drosophila simulans and D. mauritiana. [My Copy] Journal of molecular evolution (21 February 2008) by Ana Llopart, Aelén Mabillé, Jennifer R. Peters-Hall, Josep M. Comeron, Richard M. Kliman posted to doctorate by operon on 2008-04-17 04:41:26 as along with 1 person codonusage
	Detecting amino acid sites under positive selection and purifying selection. [My Copy] Genetics (16 January 2005) by Tim Massingham, Nick Goldman posted to doctorate evolution by operon on 2008-04-13 03:07:02 as along with 6 people and 1 group MRCBIRD gjuggler gwallau stevanspringer BioNica Natasha FAB-lab
	Replication-associated strand asymmetries in mammalian genomes: toward detection of replication origins. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 28. (12 July 2005), pp. 9836-9841. by M. Touchon, S. Nicolay, B. Audit, et al.E. B. Brodie of Brodie, Y. d'Aubenton-Carafa, A. Arneodo, C. Thermes posted to doctorate genometrics by operon on 2008-04-12 23:19:17 as along with 2 people aprasad bpcusack
	The relationship between synonymous codon usage and protein structure. [My Copy] FEBS Lett, Vol. 434, No. 1-2. (28 August 1998), pp. 93-96. by T. Xie, D. Ding, X. Tao, D. Dafu posted to codon_bias doctorate by operon on 2008-04-12 05:55:47 as along with 1 person saunders

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evolution	930
master	794
transposon	526
phylogenetics	423
genomics	394
selection	239
bioinformatics	229
reduction	220
mutation	209
software	189
mycoplasma	98
doctorate	87
annotation	74
prokaryote	73
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retroelement	61
arthropod	60
protein	56
structure	56
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genometrics	40
horizontal_transfer	39
dna	35
ortholog	35
bacteria	31
database	31
immunology	31
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repeats	30
symbiosis	30
codon_bias	29
statistics	29
genetics	28
rearrangements	28
sequencing	27
analysis	25
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