operon's annotation [74 articles] Export

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

	Exploring inconsistencies in genome-wide protein function annotations: a machine learning approach. [My Copy] BMC bioinformatics, Vol. 8 (03 August 2007), 284. by Carson Andorf, Drena Dobbs, Vasant Honavar posted to software protein genomics bioinformatics annotation ai by operon on 2009-11-28 14:17:30 as
	Evolutionary optimization of sequence kernels for detection of bacterial gene starts. [My Copy] International journal of neural systems, Vol. 17, No. 5. (October 2007), pp. 369-381. by Britta Mersch, Tobias Glasmachers, Peter Meinicke, Christian Igel posted to genome evolution annotation by operon on 2009-11-28 14:11:52 as
	HeliCis: a DNA motif discovery tool for colocalized motif pairs with periodic spacing. [My Copy] BMC bioinformatics, Vol. 8 (28 October 2007), 418. by Erik Larsson, Per Lindahl, Petter Mostad posted to software motif_discovery motif annotation by operon on 2009-11-28 13:35:33 as along with 3 people maximilianh idonaldson isimpson
	A practical guide to the art of RNA gene prediction. [My Copy] Briefings in bioinformatics, Vol. 8, No. 6. (4 November 2007), pp. 396-414. by Irmtraud M. Meyer posted to rna prediction gene_prediction annotation by operon on 2009-11-28 13:34:26 as along with 9 people NicholasErho thegoose2 zanexu penka wenhan GustavoLacerda xili03 xingxu tharris
	The necessary junk: new functions for transposable elements [My Copy] Hum. Mol. Genet., Vol. 16, No. R2. (15 October 2007), pp. R159-167. by Alysson R. Muotri, Maria C. N. Marchetto, Nicole G. Coufal, Fred H. Gage posted to transposon evolution annotation by operon on 2009-11-16 23:31:00 as along with 7 people and 2 groups TimRooney sbottani andreasapostolides dchughes gpappas RaquelSL ArtemPankin BergmanLab Khavkin's lab
	5â²-Transducing SVA retrotransposon groups spread efficiently throughout the human genome [My Copy] Genome Research, Vol. 19, No. 11. (3 November 2009), pp. 1992-2008. by Annette Damert, Julija Raiz, Axel V. Horn, et al.Johannes LÃ¶wer, Hui Wang, Jinchuan Xing, Mark A. Batzer, Roswitha LÃ¶wer, Gerald G. Schumann posted to transposon evolution annotation by operon on 2009-11-16 23:22:19 as
	Mobile elements create structural variation: Analysis of a complete human genome [My Copy] Genome Research, Vol. 19, No. 9. (13 September 2009), pp. 1516-1526. by Jinchuan Xing, Yuhua Zhang, Kyudong Han, et al.Abdel H. Salem, Shurjo K. Sen, Chad D. Huff, Qiong Zhou, Ewen F. Kirkness, Samuel Levy, Mark A. Batzer, Lynn B. Jorde posted to transposon evolution annotation by operon on 2009-11-16 23:22:13 as along with 10 people and 1 group n00c djkt sameersoi APRegier dchughes fenghezi jandot Dulcinea natstreet JustinCrocker Journal picks
	Exon-trapping mediated by the human retrotransposon SVA [My Copy] Genome Research, Vol. 19, No. 11. (27 November 2009), pp. 1983-1991. by Dustin C. Hancks, Adam D. Ewing, Jesse E. Chen, Katsushi Tokunaga, Haig H. Kazazian posted to transposon evolution annotation by operon on 2009-11-16 23:21:53 as along with 1 person bpcusack
	Cross-Sectional Dating of Novel Haplotypes of HERV-K 113 and HERV-K 115 Indicate These Proviruses Originated in Africa before Homo sapiens [My Copy] Mol Biol Evol, Vol. 26, No. 11. (1 November 2009), pp. 2617-2626. by Aashish R. Jha, Satish K. Pillai, Vanessa A. York, et al.Elizabeth R. Sharp, Emily C. Storm, Douglas J. Wachter, Jeffrey N. Martin, Steven G. Deeks, Michael G. Rosenberg, Douglas F. Nixon, Keith E. Garrison posted to transposon evolution annotation by operon on 2009-11-16 23:21:29 as
	Adplot: detection and visualization of repetitive patterns in complete genomes [My Copy] Bioinformatics, Vol. 20, No. 5. (22 March 2004), pp. 701-708. by Akito Taneda posted to transposon repeat evolution annotation by operon on 2009-11-16 23:16:49 as along with 1 person GustavoLacerda
	Structural and Evolutionary Analyses of the Ty3/gypsy Group of LTR Retrotransposons in the Genome of Anopheles gambiae [My Copy] Mol Biol Evol, Vol. 22, No. 1. (1 January 2005), pp. 29-39. by Jose M. Tubio, Horacio Naveira, Javier Costas posted to transposon evolution annotation by operon on 2009-11-16 23:12:23 as
	Computational Finishing of Large Sequence Contigs Reveals Interspersed Nested Repeats and Gene Islands in the rf1-Associated Region of Maize [My Copy] Plant Physiol., Vol. 151, No. 2. (1 October 2009), pp. 483-495. by Brent A. Kronmiller, Roger P. Wise posted to transposon evolution annotation by operon on 2009-11-16 23:12:11 as
	Using GeneWise in the Drosophila Annotation Experiment [My Copy] Genome Research, Vol. 10, No. 4. (1 April 2000), pp. 547-548. by Ewan Birney, Richard Durbin posted to transposon evolution annotation by operon on 2009-11-16 23:11:34 as along with 2 people and 1 group rshe wenhan MBLAB
	Genome annotation past, present, and future: How to define an ORF at each locus [My Copy] Genome Research, Vol. 15, No. 12. (December 2005), pp. 1777-1786. by Michael R. Brent posted to transposon evolution annotation by operon on 2009-11-16 23:11:30 as along with 7 people and 1 group timhubbard jasontsai orzenil textoris Ayest indigoviolet wenhan EisenLab
	CEGMA: a pipeline to accurately annotate core genes in eukaryotic genomes [My Copy] Bioinformatics, Vol. 23, No. 9. (1 May 2007), pp. 1061-1067. by Genis Parra, Keith Bradnam, Ian Korf posted to transposon evolution annotation by operon on 2009-11-16 23:11:27 as along with 6 people and 2 groups orzenil guhjy indigoviolet stajich wenhan GustavoLacerda EisenLab Mycology
	Genomix: a method for combining gene-finders' predictions, which uses evolutionary conservation of sequence and intron exon structure [My Copy] Bioinformatics, Vol. 23, No. 12. (15 June 2007), pp. 1468-1475. by Avril Coghlan, Richard Durbin posted to transposon evolution annotation by operon on 2009-11-16 23:11:23 as along with 8 people and 3 groups thegoose2 jmartin49 tharris druvus indigoviolet stajich GustavoLacerda dmc C. elegans / WormBase EisenLab Durbin group
	EGPred: Prediction of Eukaryotic Genes Using Ab Initio Methods After Combining With Sequence Similarity Approaches [My Copy] Genome Research, Vol. 14, No. 9. (September 2004), pp. 1756-1766. by Biju Issac, Gajendra P. Raghava posted to transposon evolution annotation by operon on 2009-11-16 23:11:20 as
	Evolutionary dynamics of transposable elements in the short-tailed opossum Monodelphis domestica [My Copy] Genome Research, Vol. 17, No. 7. (1 July 2007), pp. 992-1004. by Andrew J. Gentles, Matthew J. Wakefield, Oleksiy Kohany, et al.Wanjun Gu, Mark A. Batzer, David D. Pollock, Jerzy Jurka posted to transposon evolution annotation by operon on 2009-11-16 18:49:32 as along with 3 people and 2 groups sbottani dchughes FMoncini G4ID Genetics-of-Gambling
	GENECODIS: a web-based tool for finding significant concurrent annotations in gene lists. [My Copy] Genome biology, Vol. 8, No. 1. (04 January 2007), R3. by Pedro Carmona-Saez, Monica Chagoyen, Francisco Tirado, Jose M. Carazo, Alberto Pascual-Montano posted to software genomics bioinformatics annotation by operon on 2009-11-09 21:52:55 as along with 6 people and 1 group Thaverkamp ptrobajo aalibes jfr ealloza yas BioinfoCIPF
	Annotation Confidence Score for Genome Annotation: A Genome Comparison Approach. [My Copy] Bioinformatics (Oxford, England) (24 October 2009), btp613. by Youngik Yang, Donald Gilbert, Sun Kim posted to sequencing genomics annotation by operon on 2009-11-07 20:29:54 as along with 4 people ramonvidal kevinzheng1983 kshameer druvus
	The Gene Wiki: community intelligence applied to human gene annotation [My Copy] Nucl. Acids Res. (15 September 2009), gkp760. by Jon W. Huss, Pierre Lindenbaum, Michael Martone, et al.Donabel Roberts, Angel Pizarro, Faramarz Valafar, John B. Hogenesch, Andrew I. Su posted to genomic annotation by operon on 2009-11-05 21:25:01 as along with 12 people and 2 groups bertelsen fgibson nlapalu daforerog jobadge jgill thomaskelder timhubbard VGreiff druvus ppgardne dullhunk eLearning in Leicester Journal picks
	Low-pass shotgun sequencing of the barley genome facilitates rapid identification of genes, conserved non-coding sequences and novel repeats [My Copy] BMC Genomics, Vol. 9, No. 1. (31 October 2008), 518. by Thomas Wicker, Apurva Narechania, Francois Sabot, et al.Joshua Stein, Giang Vu, Andreas Graner, Doreen Ware, Nils Stein posted to transposon repeat genomic evolution annotation by operon on 2009-10-26 19:13:34 as along with 5 people orzenil timflutre usagi-kirin natstreet abizar
	Genome-wide screening and characterization of transposable elements and their distribution analysis in the silkworm, Bombyx mori [My Copy] Insect Biochemistry and Molecular Biology, Vol. 38, No. 12. (December 2008), pp. 1046-1057. by Mizuko Osanai-Futahashi, Yoshitaka Suetsugu, Kazuei Mita, Haruhiko Fujiwara posted to transposon repeat evolution annotation by operon on 2009-10-26 19:13:13 as
	Computational Approaches and Tools Used in Identification of Dispersed Repetitive DNA Sequences [My Copy] Tropical Plant Biology, Vol. 1, No. 1. (1 March 2008), pp. 85-96. by Surya Saha, Susan Bridges, Zenaida Magbanua, Daniel Peterson posted to transposon repeats evolution annotation by operon on 2009-10-26 19:12:15 as along with 2 people natstreet druvus
	ReAS: Recovery of Ancestral Sequences for Transposable Elements from the Unassembled Reads of a Whole Genome Shotgun [My Copy] PLoS Comput Biol, Vol. 1, No. 4. (23 September 2005), e43. by Ruiqiang Li, Jia Ye, Songgang Li, et al.Jing Wang, Yujun Han, Chen Ye, Jian Wang, Huanming Yang, Jun Yu, Gane K. Wong, Jun Wang posted to transposon software repeat bioinformatics annotation by operon on 2009-10-26 19:11:13 as along with 3 people natstreet timflutre yoanjacquemin
	The DAWGPAWS pipeline for the annotation of genes and transposable elements in plant genomes. [My Copy] Plant methods, Vol. 5, No. 1. (2009), 8. by James C. Estill, Jeffrey L. Bennetzen posted to transposon annotation by operon on 2009-10-26 19:10:48 as along with 3 people druvus orzenil natstreet
	Fine-grained annotation and classification of de novo predicted LTR retrotransposons [My Copy] Nucl. Acids Res. (28 September 2009), gkp759. by Sascha Steinbiss, Ute Willhoeft, Gordon Gremme, Stefan Kurtz posted to transposon evolution annotation by operon on 2009-10-26 18:12:06 as along with 1 person kshameer
	G-compass: A web-based comparative genome browser between human and other vertebrate genomes [My Copy] Bioinformatics (21 October 2009), btp594. by Yoshihiro Kawahara, Ryuichi Sakate, Akihiro Matsuya, et al.Katsuhiko Murakami, Yoshiharu Sato, Hao Zhang, Takashi Gojobori, Takeshi Itoh, Tadashi Imanishi posted to genomics bioinformatics annotation by operon on 2009-10-25 04:50:15 as along with 4 people idonaldson kshameer neils druvus
	Improved repeat identification and masking in Dipterans. [My Copy] Gene, Vol. 389, No. 1. (1 March 2007), pp. 1-9. by Christopher D. Smith, Robert C. Edgar, Mark D. Yandell, et al.Douglas R. Smith, Susan E. Celniker, Eugene W. Myers, Gary H. Karpen posted to transposon insect evolution arthropod annotation by operon on 2009-09-30 04:59:29 as along with 4 people and 1 group timflutre natstreet druvus PetrovLab LabDros
	Between proteins and phenotypes: annotation and interpretation of mutations. [My Copy] BMC bioinformatics, Vol. 10 Suppl 8 (2009) by Christopher J. Baker, Dietrich Rebholz-Schuhmann posted to mutation annotation by operon on 2009-09-27 16:51:41 as
	Characterization and distribution of retrotransposons and simple sequence repeats in the bovine genome [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 31. (4 August 2009), pp. 12855-12860. by David L. Adelson, Joy M. Raison, Robert C. Edgar posted to transposon evolution annotation by operon on 2009-08-31 20:24:13 as along with 1 person dakelley
	Lens Epithelium-derived Growth Factor/p75 Interacts with the Transposase-derived DDE Domain of PogZ [My Copy] Journal of Biological Chemistry, Vol. 284, No. 17. (24 April 2009), pp. 11467-11477. by Koen Bartholomeeusen, Frauke Christ, Jelle Hendrix, et al.Jean-Christophe Rain, StÃ©phane Emiliani, Richard Benarous, Zeger Debyser, Rik Gijsbers, Jan De Rijck posted to transposon evolution annotation by operon on 2009-08-31 14:21:31 as
	Independent Mammalian Genome Contractions Following the KT Boundary [My Copy] Genome Biol Evol, Vol. 2009, No. 0. (22 June 2009), pp. 2-12. by Mina Rho, Mo Zhou, Xiang Gao, Sun Kim, Haixu Tang, Michael Lynch posted to transposon evolution annotation by operon on 2009-08-31 14:20:31 as
	Multiple waves of recent DNA transposon activity in the bat, Myotis lucifugus [My Copy] Genome Research, Vol. 18, No. 5. (May 2008), pp. 717-728. by David A. Ray, Cedric Feschotte, Heidi J. T. Pagan, et al.Jeremy D. Smith, Ellen J. Pritham, Peter Arensburger, Peter W. Atkinson, Nancy L. Craig posted to transposon evolution annotation by operon on 2009-08-31 14:20:09 as
	Mammalian non-LTR retrotransposons: For better or worse, in sickness and in health [My Copy] Genome Research, Vol. 18, No. 3. (1 March 2008), pp. 343-358. by Victoria P. Belancio, Dale J. Hedges, Prescott Deininger posted to transposon evolution annotation by operon on 2009-08-31 14:20:04 as along with 2 people guhjy dchughes
	Tracking the past: Interspersed repeats in an extinct Afrotherian mammal, Mammuthus primigenius [My Copy] Genome Research, Vol. 19, No. 8. (August 2009), pp. 1384-1392. by Fangqing Zhao, Ji Qi, Stephan C. Schuster posted to transposon evolution annotation by operon on 2009-08-31 14:19:46 as along with 2 people aprasad dchughes
	Diverse cis factors controlling Alu retrotransposition: What causes Alu elements to die? [My Copy] Genome Research, Vol. 19, No. 4. (April 2009), pp. 545-555. by Matthew S. Comeaux, Astrid M. Roy-Engel, Dale J. Hedges, Prescott L. Deininger posted to transposon evolution annotation by operon on 2009-08-31 14:19:29 as along with 2 people megraw fenghezi
	Human Endogenous Retrovirus K (HML-2) Elements in the Plasma of People with Lymphoma and Breast Cancer [My Copy] J. Virol., Vol. 82, No. 19. (1 October 2008), pp. 9329-9336. by Rafael Contreras-Galindo, Mark H. Kaplan, Philippe Leissner, et al.Thibault Verjat, Ilaria Ferlenghi, Fabio Bagnoli, Fabiola Giusti, Michael H. Dosik, Daniel F. Hayes, Scott D. Gitlin, David M. Markovitz posted to transposon evolution annotation by operon on 2009-08-31 14:18:59 as
	Distinguishing Among Evolutionary Models for the Maintenance of Gene Duplicates [My Copy] J Hered, Vol. 100, No. 5. (1 September 2009), pp. 605-617. by Matthew W. Hahn posted to transposon evolution annotation by operon on 2009-08-31 14:11:00 as along with 2 people DrRichardBadge xianjun
	PIF-like Transposons are Common in Drosophila and Have Been Repeatedly Domesticated to Generate New Host Genes [My Copy] Mol Biol Evol, Vol. 24, No. 8. (1 August 2007), pp. 1872-1888. by Claudio Casola, A. Michelle Lawing, Esther Betran, Cedric Feschotte posted to transposon evolution annotation by operon on 2009-08-31 14:10:49 as along with 2 people and 3 groups dpollard dchughes EisenLab G4ID Genetics-of-Gambling
	Active Miniature Transposons From a Plant Genome and Its Nonrecombining Y Chromosome [My Copy] Genetics, Vol. 178, No. 2. (1 February 2008), pp. 1085-1092. by R. Bergero, A. Forrest, D. Charlesworth posted to transposon evolution annotation by operon on 2009-08-31 14:09:47 as
	The evolutionary history of human DNA transposons: Evidence for intense activity in the primate lineage [My Copy] Genome Research, Vol. 17, No. 4. (April 2007), pp. 422-432. by John K. Pace, CÃ©dric Feschotte posted to transposon evolution annotation by operon on 2009-08-31 14:09:43 as
	Evolution of the mammalian transcription factor binding repertoire via transposable elements [My Copy] Genome Research, Vol. 18, No. 11. (5 November 2008), pp. 1752-1762. by Guillaume Bourque, Bernard Leong, Vinsensius B. Vega, et al.Xi Chen, Yen L. Lee, Kandhadayar G. Srinivasan, Joon-Lin Chew, Yijun Ruan, Chia-Lin Wei, Huck H. Ng, Edison T. Liu posted to transposon evolution annotation by operon on 2009-08-31 14:09:39 as along with 3 people and 2 groups mhiromi maximilianh cisevol cis-regulatory-evolution BergmanLab
	Creation of the two isoforms of rodent NKG2D was driven by a B1 retrotransposon insertion [My Copy] Nucl. Acids Res., Vol. 37, No. 9. (1 May 2009), pp. 3032-3043. by C. Benjamin Lai, Ying Zhang, Sally L. Rogers, Dixie L. Mager posted to transposon evolution annotation by operon on 2009-08-31 14:09:34 as
	Genome-Wide Analysis of Transposon Insertion Polymorphisms Reveals Intraspecific Variation in Cultivated Rice [My Copy] Plant Physiol., Vol. 148, No. 1. (1 September 2008), pp. 25-40. by Xuehui Huang, Guojun Lu, Qiang Zhao, Xiaohui Liu, Bin Han posted to transposon evolution annotation by operon on 2009-08-31 14:07:42 as along with 3 people and 1 group orzenil cisevol Neeperando BergmanLab
	Efficient computation of all perfect repeats in genomic sequences of up to half a gigabyte, with a case study on the human genome [My Copy] Bioinformatics, Vol. 25, No. 14. (15 July 2009), pp. 1746-1753. by Veronica Becher, Alejandro Deymonnaz, Pablo Heiber posted to transposon evolution annotation by operon on 2009-08-31 14:06:41 as along with 2 people orzenil hdopazo
	A novel genome-scale repeat finder geared towards transposons [My Copy] Bioinformatics, Vol. 24, No. 4. (15 February 2008), pp. 468-476. by Xuehui Li, Tamer Kahveci, A. Mark Settles posted to transposon evolution annotation by operon on 2009-08-31 14:06:22 as along with 3 people and 1 group timflutre GustavoLacerda idonaldson BergmanLab
	Discovering and detecting transposable elements in genome sequences. [My Copy] Briefings in bioinformatics, Vol. 8, No. 6. (10 November 2007), pp. 382-392. by Casey M. Bergman, Hadi Quesneville posted to transposon evolution annotation by operon on 2009-08-31 14:05:22 as along with 14 people and 2 groups orzenil gwallau natstreet druvus gpappas dpollard timflutre GustavoLacerda cabbagezs maximilianh cisevol urgi yoanjacquemin pradiptaray EisenLab BergmanLab
	TEnest: Automated Chronological Annotation and Visualization of Nested Plant Transposable Elements [My Copy] Plant Physiol., Vol. 146, No. 1. (1 January 2008), pp. 45-59. by Brent A. Kronmiller, Roger P. Wise posted to transposon evolution annotation by operon on 2009-08-31 14:05:16 as along with 3 people orzenil druvus timflutre
	Dynamics and Differential Proliferation of Transposable Elements During the Evolution of the B and A Genomes of Wheat [My Copy] Genetics, Vol. 180, No. 2. (1 October 2008), pp. 1071-1086. by Mathieu Charles, Harry Belcram, Jeremy Just, et al.Cecile Huneau, Agnes Viollet, Arnaud Couloux, Beatrice Segurens, Meredith Carter, Virginie Huteau, Olivier Coriton, Rudi Appels, Sylvie Samain, Boulos Chalhoub posted to transposon evolution annotation by operon on 2009-08-31 14:05:09 as along with 1 person timflutre

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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
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drosophila	65
retroelement	61
arthropod	60
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structure	56
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method	41
genometrics	40
horizontal_transfer	39
dna	35
ortholog	35
bacteria	31
database	31
immunology	31
pathogenics	31
repeats	30
symbiosis	30
codon_bias	29
statistics	29
genetics	28
rearrangements	28
sequencing	27
analysis	25
biotechnology	23
expression	23
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transcription	20
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comparative	19
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population	15
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ai	13
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search	12
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functional	11
human	11
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fluorescence	4
hmm	4
interaction	4
methylation	4
model	4
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python	4
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strand	4
transposons	4
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web	4
alu	3
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go	3
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r	3
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tools	1
transcription_factors	1
tree_topology	1
tree_visualization	1
vertebrate	1
web_service	1

operon's annotation [74 articles] Export

operon's tags