Tag indel [105 articles]

Recent papers classified by the tag indel.

	MoDIL: detecting small indels from clone-end sequencing with mixtures of distributions [My Copy] Nat Meth, Vol. 6, No. 7. (31 July 2009), pp. 473-474. by Seunghak Lee, Fereydoun Hormozdiari, Can Alkan, Michael Brudno posted to sequencing nextgen indel clone-end by fpattyn to the group Neuroblastoma on 2009-07-02 14:00:17 as along with 1 person dakelley
	Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes [My Copy] Genome Research, Vol. 19, No. 7. (15 July 2009), pp. 1270-1278. by Fereydoun Hormozdiari, Can Alkan, Evan E. Eichler, S. Cenk Sahinalp posted to sv sequencing indel evolution by djkt on 2009-07-01 22:21:57 as along with 6 people dandaman sameersoi dakelley APRegier natstreet druvus
	Ride the wavelet: A multiscale analysis of genomic contexts flanking small insertions and deletions [My Copy] Genome Research, Vol. 19, No. 7. (July 2009), pp. 1153-1164. by Erika M. Kvikstad, Francesca Chiaromonte, Kateryna D. Makova posted to indel evolution by djkt on 2009-07-01 22:04:27 as along with 1 person gjuggler
	Using evolutionary Expectation Maximization to estimate indel rates [My Copy] Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2294-2300. by Ian Holmes posted to substitution_rate likelihood indel_rate indel by aprasad on 2009-06-26 17:40:18 as along with 1 person druvus
	INDELible: A Flexible Simulator of Biological Sequence Evolution. [My Copy] Molecular biology and evolution (7 May 2009) by William Fletcher, Ziheng Yang posted to simulation indel evolution by djkt to the group iSEEM on 2009-06-09 19:34:20 as along with 3 people druvus nuin gjuggler
	Variation in the ratio of nucleotide substitution and indel rates across genomes in mammals and bacteria [My Copy] Mol Biol Evol (27 March 2009), msp063. by Chen Jian-Qun, Ying Wu, Haiwang Yang, Joy Bergelson, Martin Kreitman, Dacheng Tian posted to indel evolution by djkt on 2009-06-09 19:15:48 as along with 2 people bmajoros nuin
	Consequences of Lineage-Specific Gene Loss on Functional Evolution of Surviving Paralogs: ALDH1A and Retinoic Acid Signaling in Vertebrate Genomes [My Copy] PLoS Genet, Vol. 5, No. 5. (29 May 2009), e1000496. by Cristian Cañestro, Julian M. Catchen, Adriana Rodríguez-Marí, Hayato Yokoi, John H. Postlethwait posted to indel evolution duplication by djkt on 2009-05-30 18:34:51 as along with 1 person kiekyon
	Detection of disease-associated deletions in case–control studies using SNP genotypes with application to rheumatoid arthritis [My Copy] Human Genetics by Chih-Chieh Wu, Sanjay Shete, Wei Chen, et al.Bo Peng, Annette Lee, Jianzhong Ma, Peter Gregersen, Christopher Amos posted to sv snps indel disease association by djkt on 2009-05-22 00:27:36 as
	Reconstructing the History of Yeast Genomes [My Copy] PLoS Genet, Vol. 5, No. 5. (15 May 2009), e1000483. by David Sankoff posted to yeast review reconstruction phylogenetics indel evolution duplication chromosome by djkt on 2009-05-15 16:36:52 as along with 1 person emptyhb
	Additions, Losses, and Rearrangements on the Evolutionary Route from a Reconstructed Ancestor to the Modern <italic>Saccharomyces cerevisiae</italic> Genome [My Copy] PLoS Genet, Vol. 5, No. 5. (15 May 2009), e1000485. by Jonathan L. Gordon, Kevin P. Byrne, Kenneth H. Wolfe posted to yeast reconstruction indel evolution duplication chromosome by djkt on 2009-05-15 16:36:03 as along with 3 people and 1 group cabbagesofdoom leomrtns stajich Mycology
	Deletion rate evolution and its effect on genome size and coding density. [My Copy] Molecular biology and evolution (18 March 2009) by Mats E E. Pettersson, Charles G G. Kurland, Otto G G. Berg posted to indel evolution by djkt on 2009-05-12 21:23:55 as along with 3 people bmajoros aprasad bpcusack
	PEMer: a computational framework with simulation-based error models for inferring genomic structural variants from massive paired-end sequencing data [My Copy] Genome Biology, Vol. 10 (23 February 2009), R23. by Jan, Mark B. Gerstein posted to sv sequencing indel duplication by djkt on 2009-03-03 01:28:55 as along with 7 people dakelley Neeperando APRegier smiddha natstreet poschm druvus
	Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence [My Copy] Nature Genetics, Vol. 41, No. 3. (22 February 2009), pp. 359-364. by Sabina Benko, Judy A. Fantes, Jeanne Amiel, et al.Dirk-Jan Kleinjan, Sophie Thomas, Jacqueline Ramsay, Negar Jamshidi, Abdelkader Essafi, Simon Heaney, Christopher T. Gordon, David Mcbride, Christelle Golzio, Malcolm Fisher, Paul Perry, Véronique Abadie, Carmen Ayuso, Muriel Holder-Espinasse, Nicky Kilpatrick, Melissa M. Lees, Arnaud Picard, Karen I. Temple, Paul Thomas, Marie-Paule Vazquez, Michel Vekemans, Hugues R. Crollius, Nicholas D. Hastie, Arnold Munnich, Heather C. Etchevers, Anna Pelet, Peter G. Farlie, David R. Fitzpatrick, Stanislas Lyonnet posted to transgenic tf indel expression enhancer development association by djkt on 2009-02-25 17:54:35 as along with 1 person provero
	Numt-Mediated Double-Strand Break Repair Mitigates Deletions during Primate Genome Evolution [My Copy] PLoS Genet, Vol. 4, No. 10. (24 October 2008), e1000237. by Einat Hazkani-Covo, Shay Covo posted to mutation_rate mutation intrinsic_features indel_rate indel evolution by aprasad on 2009-02-17 16:48:15 as along with 2 people dbensasson gokcumen
	The effect of insertions and deletions on wirings in protein-protein interaction networks: a large-scale study. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 2. (February 2009), pp. 159-167. by F. Hormozdiari, R. Salari, M. Hsing, et al.A. Schönhuth, S. K. Chan, S. C. Sahinalp, A. Cherkasov posted to protein indel evolution comparative_genomics coding by aprasad on 2009-02-17 15:00:44 as along with 1 person robfsouza
	Mystery of intron gain: new data and new models [My Copy] Trends in Genetics, Vol. 25, No. 2. (February 2009), pp. 67-73. by Scott W. Roy, Manuel Irimia posted to review intron indel duplication by djkt on 2009-02-09 18:23:03 as
	Evolution of Microbial Genomes: Sequence Acquisition and Loss [My Copy] Mol Biol Evol, Vol. 19, No. 12. (1 December 2002), pp. 2265-2276. by Otto G. Berg, C. G. Kurland posted to variation microbial insertaion indel hgt genome evolution deletion acquisition by yonatanf on 2009-02-09 17:49:19 as along with 2 people Scis0000002 AaronDarling
	Domain-level differences in microsatellite distribution and content result from different relative rates of insertion and deletion mutations. [My Copy] Genome research, Vol. 12, No. 3. (March 2002), pp. 408-413. by D. Metzgar, L. Liu, C. Hansen, K. Dybvig, C. Wills posted to tandem repeat indel by druvus on 2009-02-05 11:50:27 as
	Systematic analysis of insertions and deletions specific to nematode proteins and their proposed functional and evolutionary relevance [My Copy] BMC Evolutionary Biology, Vol. 9 (28 January 2009), 23. by Zhengyuan, Makedonka Mitreva posted to indel evolution by druvus on 2009-02-05 07:31:18 as
	Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth [My Copy] BMC Genomics, Vol. 9 (27 May 2008), 247. by Ju-Hoon Lee, V. N. Karamychev, S. A. Kozyavkin, et al.D. Mills, A. R. Pavlov, N. V. Pavlova, N. N. Polouchine, P. M. Richardson, V. V. Shakova, A. I. Slesarev, B. Weimer, D. J. O'Sullivan posted to indel comperative_genomics bacteria by druvus on 2009-01-22 13:31:39 as along with 2 people and 1 group Olaf_Ilzins bfm probiotic
	The Dynamics and Time Scale of Ongoing Genomic Erosion in Symbiotic Bacteria [My Copy] Science, Vol. 323, No. 5912. (16 January 2009), pp. 379-382. by Nancy A. Moran, Heather J. Mclaughlin, Rotem Sorek posted to symbiosis mutation microbes indel evolution by djkt to the group iSEEM on 2009-01-17 00:44:00 as along with 6 people and 1 group JeremyZucker emptyhb abizar behindtherabbit bpb pansapiens MetabolicModeling
	Problems and solutions for estimating indel rates and length distributions [My Copy] Mol Biol Evol (28 November 2008), msn275. by Reed A. Cartwright posted to indel evolution estimation by djkt on 2009-01-13 17:26:49 as along with 2 people timflutre gjuggler
	Incorporation of gap characters and lineage-specific regions into phylogenetic analyses of gene families from divergent clades: an example from the kinesin superfamily across eukaryotes [My Copy] Cladistics, Vol. 24, No. 3. (2008), pp. 372-384. by Mark P. Simmons, Dale Richardson, Anireddy S. N. Reddy posted to software phylogeny indel by druvus on 2008-12-19 15:33:35 as
	Genomic deletion marking an emerging subclone of Francisella tularensis subsp. holarctica in France and the Iberian Peninsula. [My Copy] Applied and environmental microbiology, Vol. 73, No. 22. (November 2007), pp. 7465-7470. by M. P. Dempsey, M. Dobson, C. Zhang, et al.M. Zhang, C. Lion, C. B. Gutiérrez-Martín, P. C. Iwen, P. D. Fey, M. E. Olson, D. Niemeyer, S. Francesconi, R. Crawford, M. Stanley, J. Rhodes, D. M. Wagner, A. J. Vogler, D. Birdsell, P. Keim, A. Johansson, S. H. Hinrichs, A. K. Benson posted to indel genome francisella by druvus on 2008-12-18 12:46:41 as
	Ngila: global pairwise alignments with logarithmic and affine gap costs. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 11. (1 June 2007), pp. 1427-1428. by R. A. Cartwright posted to software indel alignment by druvus on 2008-12-17 15:01:57 as along with 2 people timflutre bozdagd
	Logarithmic gap costs decrease alignment accuracy [My Copy] BMC Bioinformatics, Vol. 7 (05 December 2006), 527. by Reed A. Cartwright posted to indel alignment by druvus on 2008-12-17 14:59:05 as along with 4 people and 1 group timflutre treangen dpollard groepl EisenLab
	Problems and solutions for estimating indel rates and length distributions. [My Copy] Molecular biology and evolution (28 November 2008) by Reed A A. Cartwright posted to statistics indel by druvus on 2008-12-15 08:38:56 as along with 2 people aprasad nuin
	Turning a hobby into a job: How duplicated genes find new functions [My Copy] Nat Rev Genet, Vol. 9, No. 12. (December 2008), pp. 938-950. by Gavin C. Conant, Kenneth H. Wolfe posted to read indel genetics evolution duplication cancer-crosstalk by Zephyrus to the group Roswell Cancer Crosstalk on 2008-12-14 17:57:08 as along with 11 people and 2 groups Annab clearbluespring ajaymalik ilyashl azazello pinney gderwin bootsy strands dchughes pkonings Bioinformatics R.E.A.D
	The genomic landscape of short insertion and deletion polymorphisms in the chicken (Gallus gallus) genome: a high frequency of deletions in tandem duplicates. [My Copy] Genetics (16 May 2007) by Mikael Brandstrom, Hans Ellegren posted to tandem indel genome by druvus on 2008-12-10 08:18:29 as along with 1 group Bioinformatics
	A phylogenetic analysis of indel dynamics in the cotton genus. [My Copy] Molecular biology and evolution (9 April 2008) by Corrinne E E. Grover, Yeisoo Yu, Rod A A. Wing, Andrew H H. Paterson, Jonathan F F. Wendel posted to indel genome evolution cotton by druvus on 2008-12-02 14:45:49 as along with 1 person aprasad
	Intron Length Evolution in Drosophila. [My Copy] Mol Biol Evol (21 August 2006) by Daven C C. Presgraves posted to indel evolution drosophila by druvus on 2008-12-02 14:41:56 as along with 5 people and 1 group aprasad JAShapiro indigoviolet dpollard lilou EisenLab
	SSRs and INDELs mined from the sunflower EST database: abundance, polymorphisms, and cross-taxa utility. [My Copy] TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, Vol. 117, No. 7. (November 2008), pp. 1021-1029. by A. Heesacker, V. K. Kishore, W. Gao, et al.S. Tang, J. M. Kolkman, A. Gingle, M. Matvienko, A. Kozik, R. M. Michelmore, Z. Lai, L. H. Rieseberg, S. J. Knapp posted to sunflower ssr plant indel est database by druvus on 2008-12-02 14:38:29 as along with 1 person orzenil
	PolyScan: an automatic indel and SNP detection approach to the analysis of human resequencing data. [My Copy] Genome Res, Vol. 17, No. 5. (May 2007), pp. 659-666. by K. Chen, M. D. McLellan, L. Ding, et al.M. C. Wendl, Y. Kasai, R. K. Wilson, E. R. Mardis posted to software snp indel by druvus on 2008-12-02 14:30:30 as along with 3 people natstreet guhjy ohara
	Incorporating Indel Information into Phylogeny Estimation for Rapidly Emerging Pathogens [My Copy] BMC Evolutionary Biology, Vol. 7 (14 March 2007), 40. by Benjamin D. Redelings, Marc A. Suchard posted to software indel by druvus on 2008-12-02 14:29:32 as along with 4 people and 1 group operon aprasad dpollard stajich EisenLab
	MCALIGN2: Faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution [My Copy] BMC Bioinformatics, Vol. 7 (08 June 2006), 292. by Jun Wang, Peter D. Keightley, Toby Johnson posted to software indel by druvus on 2008-12-02 14:29:18 as along with 5 people and 1 group gjuggler Ayest dpollard papamicd bozdagd EisenLab
	GapCoder automates the use of indel characters in phylogenetic analysis. [My Copy] BMC Bioinformatics, Vol. 4 (19 February 2003) by N. D. Young, J. Healy posted to software indel algorithm by druvus on 2008-12-02 14:23:41 as along with 1 person echinotrix
	Functional constraint and small insertions and deletions in the ENCODE regions of the human genome [My Copy] Genome Biology, Vol. 8 (04 September 2007), R180. by Taane G. Clark, Toby Andrew, Gregory M. Cooper, Elliot H. Marguiles, James C. Mullikin, David J. Balding posted to noncoding mammals indel by cisevol to the group cis-regulatory-evolution on 2008-11-22 20:05:28 as along with 3 people ryanraaum caseybrown aprasad
	Probabilistic Phylogenetic Inference with Insertions and Deletions [My Copy] PLoS Comput Biol, Vol. 4, No. 9. (2008), e1000172. by Elena Rivas, Sean R. Eddy posted to phylogenetics indel evolution by djkt to the group iSEEM on 2008-11-06 18:14:53 as along with 11 people BioNica mhamada treangen pradiptaray zwang nuin timflutre druvus aprasad gjuggler emptyhb
	SNP2CAPS: a SNP and INDEL analysis tool for CAPS marker development. [My Copy] Nucleic acids research, Vol. 32, No. 1. (2004) by T. Thiel, R. Kota, I. Grosse, N. Stein, A. Graner posted to snp marker indel caps by druvus on 2008-11-06 08:33:22 as along with 1 person guhjy
	Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes [My Copy] Nature (20 July 2008) by Dacheng Tian, Qiang Wang, Pengfei Zhang, et al.Hitoshi Araki, Sihai Yang, Martin Kreitman, Thomas Nagylaki, Richard Hudson, Joy Bergelson, Jian Q. Chen posted to substitution_rate mutation_rate mutation indel by aprasad on 2008-10-27 00:48:56 as along with 8 people and 1 group Annab dakelley zwang psique djkt caseybrown bpcusack gjuggler parkinson's disease references
	Comparative analysis of bacterial genomes: identification of divergent regions in mycobacterial strains using an anchor-based approach. [My Copy] Nucleic Acids Res, Vol. 35, No. 11. (2007), pp. 3654-3667. by A. Vishnoi, R. Roy, A. Bhattacharya posted to software indel genome by druvus on 2008-10-07 14:11:21 as along with 1 person operon
	A versatile computational pipeline for bacterial genome annotation improvement and comparative analysis, with Brucella as a use case [My Copy] Nucl. Acids Res., Vol. 35, No. 12. (9 June 2007), pp. 3953-3962. by G. X. Yu, E. E. Snyder, S. M. Boyle, et al.O. R. Crasta, M. Czar, S. P. Mane, A. Purkayastha, B. Sobral, J. C. Setubal posted to indel genome annotation by druvus on 2008-10-07 13:59:05 as along with 1 person dansullivanblk
	Insertion-deletion polymorphisms (indels) as genetic markers in natural populations [My Copy] BMC Genetics, Vol. 9 (22 January 2008), 8. by Ulo Vali, Mikael Brandstrom, Malin Johansson, Hans Ellegren posted to population marker indel by druvus on 2008-10-07 13:56:57 as along with 1 person natstreet
	Transducers: an emerging probabilistic framework for modeling indels on trees [My Copy] Bioinformatics, Vol. 23, No. 23. (1 December 2007), pp. 3258-3262. by Robert K. Bradley, Ian Holmes posted to phylogeny indel by druvus on 2008-09-19 11:41:14 as along with 3 people timflutre djkt ryanraaum
	Evolution of the SEC1 gene in New World monkey lineages (Primates, Platyrrhini). [My Copy] Genetics and molecular research : GMR, Vol. 7, No. 3. (2008), pp. 663-678. by B. N. Borges, T. S. Paiva, M. L. Harada posted to single_gene platyrrhini phylogenetics indel by aprasad on 2008-09-02 16:48:19 as
	Gaps as Characters in Sequence-Based Phylogenetic Analyses [My Copy] Systematic Biology, Vol. 49, No. 2. (2000), pp. 369-381. by Mark P. Simmons, Helga Ochoterena posted to phylogeny indel alignment by druvus on 2008-09-02 12:44:49 as
	The relative performance of indel-coding methods in simulations [My Copy] Molecular Phylogenetics and Evolution, Vol. 44, No. 2. (August 2007), pp. 724-740. by Mark P. Simmons, Kai Muller, Andrew P. Norton posted to phylogeny indel by druvus on 2008-09-02 11:44:19 as along with 1 person aprasad
	INDELSCAN: a web server for comparative identification of species-specific and non-species-specific insertion/deletion events. [My Copy] Nucleic Acids Res (21 May 2007) by Feng-Chi C. Chen, Chueng-Jong J. Chen, Trees-Juen J. Chuang posted to software indel by druvus on 2008-09-01 15:31:03 as along with 5 people and 1 group natstreet guhjy aprasad dpollard lilou EisenLab
	Mind the Gaps: Evidence of Bias in Estimates of Multiple Sequence Alignments. [My Copy] Mol Biol Evol (20 August 2007) by Tanya Golubchik, Michael J J. Wise, Simon Easteal, Lars S S. Jermiin posted to indel alignment by druvus on 2008-09-01 15:27:02 as along with 7 people natstreet BioNica treangen zwang lilou dandaman caseybrown
	Indelign: a probabilistic framework for annotation of insertions and deletions in a multiple alignment [My Copy] Bioinformatics, Vol. 23, No. 3. (1 February 2007), pp. 289-297. by Jaebum Kim, Saurabh Sinha posted to phylogeny indel alignment by druvus on 2008-09-01 15:24:36 as along with 4 people and 1 group timflutre gjuggler aprasad indigoviolet EisenLab

Note: You may cite this page as: http://www.citeulike.org/tag/indel

Result page: 1 2 3 Next

RIS BibTeX RTF/PDF

Tag indel [105 articles]

Tag selected articles

Related Tags