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	Analysis of recent segmental duplications in the bovine genome [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 571. by George Liu, Mario Ventura, Angelo Cellamare, et al.Lin Chen, Ze Cheng, Bin Zhu, Congjun Li, Jiuzhou Song, Evan Eichler posted to duplications cow by dakelley on 2009-12-01 21:39:14 as along with 2 people nuin jsatkosk
	Investigations of Oligonucleotide Usage Variance Within and Between Prokaryotes [My Copy] PLoS Comput Biol, Vol. 4, No. 4. (18 April 2008), e1000057. by Jon Bohlin, Eystein Skjerve, David W. Ussery posted to genome_signatures by dakelley on 2009-11-30 20:30:51 as along with 4 people and 2 groups michaelbarton treangen djkt jlgreen iSEEM Green Lab
	Probabilistic and Statistical Properties of Words: An Overview [My Copy] Journal of Computational Biology, Vol. 7, No. 1-2. (February 2000), pp. 1-46. by Gesine Reinert, Sophie Schbath, Michael S. Waterman posted to genome_signatures by dakelley on 2009-11-27 22:49:48 as along with 3 people aaronsmith ardalby quianominorleo
	Maximum likelihood genome assembly. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 8. (August 2009), pp. 1101-1116. by Paul Medvedev, Michael Brudno posted to theory assembly by dakelley on 2009-10-28 20:31:10 as along with 7 people nuin walshtp djkt n00c natstreet druvus operon
	An MCMC algorithm for haplotype assembly from whole-genome sequence data [My Copy] Genome Research In Genome Research, Vol. 18, No. 8. (August 2008), pp. 1336-1346. by Vikas Bansal, Aaron L. Halpern, Nelson Axelrod, Vineet Bafna posted to haplotype by dakelley on 2009-10-14 03:46:18 as along with 4 people natstreet druvus n00c xingxu
	Parametric complexity of sequence assembly: theory and applications to next generation sequencing. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 7. (July 2009), pp. 897-908. by Niranjan Nagarajan, Mihai Pop posted to theory assembly by dakelley on 2009-10-13 15:49:40 as along with 4 people claire_jubin n00c sitalange nuin
	Deep Sequencing of a Genetically Heterogeneous Sample: Local Haplotype Reconstruction and Read Error Correction [My Copy] Research in Computational Molecular Biology (2009), pp. 271-284. by Osvaldo Zagordi, Lukas Geyrhofer, Volker Roth, Niko Beerenwinkel posted to haplotype by dakelley on 2009-10-05 19:04:34 as along with 2 people n00c jonilaserson
	Sensitive and accurate detection of copy number variants using read depth of coverage [My Copy] Genome Research, Vol. 19, No. 9. (5 September 2009), pp. 1586-1592. by Seungtai Yoon, Zhenyu Xuan, Vladimir Makarov, Kenny Ye, Jonathan Sebat posted to structural_variation duplications by dakelley on 2009-09-09 23:19:43 as along with 7 people woodson8 scmelton torfinnnome n00c rdiaz jbhiatt pkonings
	Decoding the fine-scale structure of a breast cancer genome and transcriptome [My Copy] Genome Research, Vol. 16, No. 3. (1 March 2006), pp. 394-404. by Stanislav Volik, Benjamin J. Raphael, Guiqing Huang, et al.Michael R. Stratton, Graham Bignel, John Murnane, John H. Brebner, Krystyna Bajsarowicz, Pamela L. Paris, Quanzhou Tao, David Kowbel, Anna Lapuk, Dmitri A. Shagin, Irina A. Shagina, Joe W. Gray, Jan-Fang Cheng, Pieter J. de Jong, Pavel Pevzner, Colin Collins posted to structural_variation cancer by dakelley on 2009-09-07 04:01:17 as along with 4 people matthewsuderman jfr tuck emb51
	A sequence-based survey of the complex structural organization of tumor genomes [My Copy] Genome Biology, Vol. 9, No. 3. (25 March 2008), R59. by Benjamin Raphael, Stanislav Volik, Peng Yu, et al.Chunxiao Wu, Guiqing Huang, Elena Linardopoulou, Barbara Trask, Frederic Waldman, Joseph Costello, Kenneth Pienta, Gordon Mills, Krystyna Bajsarowicz, Yasuko Kobayashi, Shivaranjani Sridharan, Pamela Paris, Quanzhou Tao, Sarah Aerni, Raymond Brown, Ali Bashir, Joe Gray, Jan F. Cheng, Pieter de Jong, Mikhail Nefedov, Thomas Ried, Hesed P. Nash, Colin Collins posted to structural_variation cancer by dakelley on 2009-09-07 03:59:42 as along with 3 people matthewsuderman jfr Schmidtc
	Evaluation of Paired-End Sequencing Strategies for Detection of Genome Rearrangements in Cancer [My Copy] PLoS Comput Biol In PLoS Comput Biol, Vol. 4, No. 4. (25 April 2008), e1000051. by Ali Bashir, Stanislav Volik, Colin Collins, Vineet Bafna, Benjamin J. Raphael posted to structural_variation by dakelley on 2009-09-07 03:52:50 as along with 6 people n00c jessopher APRegier iris42 matthewsuderman vega
	Analysis of segmental duplications via duplication distance [My Copy] Bioinformatics, Vol. 24, No. 16. (15 August 2008), pp. i133-138. by Crystal L. Kahn, Benjamin J. Raphael posted to duplications by dakelley on 2009-09-02 06:16:37 as along with 1 person djkt
	SNPs Problems, Complexity, and Algorithms [My Copy] In ESA '01: Proceedings of the 9th Annual European Symposium on Algorithms (2001), pp. 182-193. by Giuseppe Lancia, Vineet Bafna, Sorin Istrail, Ross Lippert, Russell Schwartz posted to theory haplotype by dakelley on 2009-09-02 06:12:01 as
	Integrating Sequencing Technologies in Personal Genomics: Optimal Low Cost Reconstruction of Structural Variants [My Copy] PLoS Comput Biol, Vol. 5, No. 7. (10 July 2009), e1000432. by Jiang Du, Robert D. Bjornson, Zhengdong D. Zhang, Yong Kong, Michael Snyder, Mark B. Gerstein posted to structural_variation assembly by dakelley on 2009-08-11 03:22:00 as along with 7 people tharris n00c operon nuin natstreet rdiaz guhjy
	The effect of sequencing errors on metagenomic gene prediction [My Copy] BMC Genomics, Vol. 10, No. 1. (12 November 2009), 520. by Katharina Hoff posted to gene-finding by dakelley on 2009-12-16 06:06:08 as along with 7 people and 2 groups nuin druvus n00c ajsferreira skembel jsatkosk ppgardne iSEEM Journal picks
	De novo sequencing of plant genomes using second-generation technologies [My Copy] Brief Bioinform, Vol. 10, No. 6. (1 November 2009), pp. 609-618. by Michael Imelfort, David Edwards posted to short-reads assembly by dakelley on 2009-11-24 22:47:44 as along with 7 people and 1 group GustavoLacerda jforment druvus bedo Jporci TRHvidsten davidmam Bioinformatics Core Service
	Analysis of genomic signatures in prokaryotes using multinomial regression and hierarchical clustering [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 487. by Jon Bohlin, Eystein Skjerve, David Ussery posted to genome_signatures by dakelley on 2009-11-16 01:30:08 as along with 1 person robfree
	Hyperbolic SOM-based clustering of DNA fragment features for taxonomic visualization and classification [My Copy] Bioinformatics, Vol. 24, No. 14. (15 July 2008), pp. 1568-1574. by Christian Martin, Naryttza N. Diaz, Jorg Ontrup, Tim W. Nattkemper posted to metagenomics clustering by dakelley on 2009-10-19 18:01:16 as along with 2 people inesdesantiago nklee
	Phylogenetic Signals in DNA Composition: Limitations and Prospects [My Copy] Mol Biol Evol, Vol. 26, No. 5. (1 May 2009), pp. 1163-1169. by Jan Mrazek posted to genome_signatures by dakelley on 2009-10-16 23:17:11 as along with 5 people and 1 group jmeppley skembel djkt druvus nuin iSEEM
	OSLay: optimal syntenic layout of unfinished assemblies [My Copy] Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. 1573-1579. by Daniel C. Richter, Stephan C. Schuster, Daniel H. Huson posted to scaffold comparative_assembly assembly by dakelley on 2009-10-13 16:48:11 as along with 4 people n00c AaronDarling azazello GustavoLacerda
	Personalized copy number and segmental duplication maps using next-generation sequencing. [My Copy] Nature genetics, Vol. 41, No. 10. (30 October 2009), pp. 1061-1067. by Can Alkan, Jeffrey M. Kidd, Tomas Marques-Bonet, et al.Gozde Aksay, Francesca Antonacci, Fereydoun Hormozdiari, Jacob O. Kitzman, Carl Baker, Maika Malig, Onur Mutlu, S. Cenk Sahinalp, Richard A. Gibbs, Evan E. Eichler posted to structural_variation duplications by dakelley on 2009-10-13 06:00:15 as along with 30 people and 1 group ongenetics chvlyl leemachado daed gbenson n00c bozdagd sbmontgomery eshirdel merpublic shyamsg scmelton qayub natstreet fenghezi Annab djkt nuin xingxu jamesmorris rdiaz brant torfinnnome jandot pkonings danmaclean daforerog frohike rschulz gangcai Journal picks
	A New Statistical Method for Haplotype Reconstruction from Population Data [My Copy] The American Journal of Human Genetics, Vol. 68, No. 4. (April 2001), pp. 978-989. by M. Stephens, N. Smith, P. Donnelly posted to haplotype by dakelley on 2009-10-08 19:57:57 as along with 4 people tjtaylor ekostem misonneh kieran101
	A Genetic Interaction Map of RNA-Processing Factors Reveals Links between Sem1/Dss1-Containing Complexes and mRNA Export and Splicing [My Copy] Molecular Cell, Vol. 32, No. 5. (05 December 2008), pp. 735-746. by G. Wilmes, M. Bergkessel, S. Bandyopadhyay, et al.M. Shales, H. Braberg, G. Cagney, S. Collins, G. Whitworth, T. Kress, J. Weissman, T. Ideker, C. Guthrie, N. Krogan posted to genetic-interactions by dakelley on 2009-07-24 23:26:40 as along with 2 people colmryan Nashwood
	Quantitative genetic analysis in Saccharomyces cerevisiae using epistatic miniarray profiles (E-MAPs) and its application to chromatin functions [My Copy] Methods In Chromatin and Transcriptional Regulation, Vol. 40, No. 4. (December 2006), pp. 344-352. by M. Schuldiner, S. R. Collins, J. S. Weissman, N. J. Krogan posted to genetic-interactions by dakelley on 2009-07-24 23:25:12 as along with 2 people colmryan tuck
	Genomics, Prior Probability, and Statistical Tests of Multiple Hypotheses [My Copy] Genome Research, Vol. 14, No. 6. (1 June 2004), pp. 997-1001. by Kenneth F. Manly, Dan Nettleton, J. T. Gene Hwang posted to statistics by dakelley on 2009-07-23 05:16:50 as along with 2 people eckart_bindewald 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, No. 2. (23 February 2009), R23. by Jan Korbel, Alexej Abyzov, Xinmeng Mu, et al.Nicholas Carriero, Philip Cayting, Zhengdong Zhang, Michael Snyder, Mark Gerstein posted to structural_variation by dakelley on 2009-06-23 19:28:23 as along with 13 people humburg n00c orzenil adthrasher jessopher jrvalcourt Neeperando APRegier smiddha natstreet djkt poschm druvus
	Fast Statistical Alignment [My Copy] PLoS Comput Biol, Vol. 5, No. 5. (29 May 2009), e1000392. by Robert K. Bradley, Adam Roberts, Michael Smoot, et al.Sudeep Juvekar, Jaeyoung Do, Colin Dewey, Ian Holmes, Lior Pachter posted to sequence-alignment by dakelley on 2009-06-11 15:05:13 as along with 18 people and 1 group seb1 rdowell timflutre natstreet n00c yylin aprasad Gorzomagnificent guhjy reyez rec3141 farhat operon bmduggan nuin AlexBateman djkt druvus Journal picks
	Accuracy Assessment of Diploid Consensus Sequences [My Copy] IEEE/ACM Trans. Comput. Biol. Bioinformatics, Vol. 4, No. 1. (2007), pp. 88-97. by Jong H. Kim, Michael S. Waterman, Lei M. Li posted to duplications haplotype by dakelley on 2009-05-17 20:32:12 as
	Parallel short sequence assembly of transcriptomes [My Copy] BMC Bioinformatics, Vol. 10, No. Suppl 1. (2009), S14. by Benjamin Jackson, Patrick Schnable, Srinivas Aluru posted to short-reads rna-seq hpc assembly by dakelley on 2009-04-30 18:04:42 as along with 3 people n00c natstreet Scis0000002
	Recent Segmental Duplications in the Working Draft Assembly of the Brown Norway Rat [My Copy] Genome Research, Vol. 14, No. 4. (April 2004), pp. 493-506. by Eray Tuzun, Jeffrey A. Bailey, Evan E. Eichler posted to duplications by dakelley on 2009-04-30 04:01:48 as
	Exposing the fitness contribution of duplicated genes. [My Copy] Nature genetics, Vol. 40, No. 5. (May 2008), pp. 676-681. by A. DeLuna, K. Vetsigian, N. Shoresh, et al.M. Hegreness, M. Colón-González, S. Chao, R. Kishony posted to duplications genetic-interactions by dakelley on 2009-04-27 16:49:30 as along with 4 people and 1 group michaelbarton azazello djkt caseybrown WeitzGroup
	Modular epistasis in yeast metabolism [My Copy] Nat Genet, Vol. 37, No. 1. (12 December 2004), pp. 77-83. by Daniel Segre, Alexander DeLuna, George M. Church, Roy Kishony posted to genetic-interactions by dakelley on 2009-04-27 16:46:05 as along with 11 people colmryan nzm chasmand ajbattle tmmurali RMGraze balajis i41m nirfriedman koller edwardmorrissey
	Gaining confidence in high-throughput protein interaction networks. [My Copy] Nature biotechnology, Vol. 22, No. 1. (January 2004), pp. 78-85. by Joel S. Bader, Amitabha Chaudhuri, Jonathan M. Rothberg, John Chant posted to networks by dakelley on 2009-04-27 16:18:07 as along with 17 people and 1 group aceol carlk chica anf lawraga wenhui ocs dragonrez lfriedl gurkanbebek raiyar cjeans iris_2001 patrycjam patrycja_missiuro Evangelia ellakat kdl
	A haplome alignment and reference sequence of the highly polymorphic Ciona savignyi genome [My Copy] Genome Biology, Vol. 8 (20 March 2007), R41. by Kerrin S. Small, Michael Brudno, Matthew M. Hill, Arend Sidow posted to assembly haplotype by dakelley on 2009-03-27 19:58:46 as along with 3 people adijr APRegier nhp
	Diploid genome reconstruction of Ciona intestinalis and comparative analysis with Ciona savignyi [My Copy] Genome Res., Vol. 17, No. 7. (2007), pp. 1101-1110. by J. H. Kim, M. S. Waterman, L. M. Li posted to assembly haplotype by dakelley on 2009-03-17 20:50:13 as along with 2 people bpb nhp
	De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae [My Copy] Genome research In Genome Research, Vol. 19, No. 2. (17 February 2009), pp. 294-305. by Josephine A. A. Reinhardt, David A. A. Baltrus, Marc T. T. Nishimura, William R. R. Jeck, Corbin D. D. Jones, Jeffery R. R. Dangl posted to assembly short-reads by dakelley on 2009-02-08 18:34:41 as along with 16 people and 2 groups GustavoLacerda darian n00c michaelbarton pachorip ThomasDOtto robsyme orzenil AaronDarling druvus Huub_odc usagi-kirin abizar acn jbhiatt hpaces SIMR bioinformatics Bioinformatics
	Multiple alignment by sequence annealing [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007), pp. e24-29. by Ariel S. Schwartz, Lior Pachter posted to sequence-alignment by dakelley on 2009-02-07 20:00:31 as along with 4 people nuin treangen druvus gjuggler
	Performance and Scalability of Discriminative Metrics for Comparative Gene Identification in 12 Drosophila Genomes [My Copy] PLoS Comput Biol, Vol. 4, No. 4. (18 April 2008), e1000067. by Michael F. Lin, Ameya N. Deoras, Matthew D. Rasmussen, Manolis Kellis posted to crf gene-finding by dakelley on 2008-10-27 23:53:19 as along with 1 person xili03
	MOBILE GENETIC ELEMENTS: THE AGENTS OF OPEN SOURCE EVOLUTION [My Copy] Nat Rev Micro, Vol. 3, No. 9. (2005), pp. 722-732. by Laura S. Frost, Raphael Leplae, Anne O. Summers, Ariane Toussaint posted to biology review by dakelley on 2008-10-10 15:49:09 as along with 4 people orzenil rec3141 cdallett karfunkel
	Compressed full-text indexes [My Copy] ACM Comput. Surv., Vol. 39, No. 1. (2007), 2. by Gonzalo Navarro, Veli Makinen posted to theory strings by dakelley on 2009-12-03 18:40:35 as along with 9 people akavipat Scis0000002 n00c mogwaing gerold mapio meerkat mediallo dleinhaeuser
	Prediction of protein binding sites in protein structures using hidden Markov support vector machine [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 381. by Bin Liu, Xiaolong Wang, Lei Lin, Buzhou Tang, Qiwen Dong, Xuan Wang posted to svm hmm by dakelley on 2009-11-30 20:17:01 as along with 5 people and 1 group RebeccaHamer sillitoe apaydin peteruetz poirel Orengo Group Journal Picks
	Fuzzy Genome Sequence Assembly for Single and Environmental Genomes [My Copy] Fuzzy Systems in Bioinformatics and Computational Biology (2009), pp. 19-44. by Sara Nasser, Adrienne Breland, Frederick Harris, Monica Nicolescu, Gregory Vert posted to metagenomics clustering by dakelley on 2009-10-16 23:05:41 as
	Genomic Signatures in De Bruijn Chains [My Copy] Algorithms in Bioinformatics (2007), pp. 216-227. by Lenwood Heath, Amrita Pati posted to genome_signatures by dakelley on 2009-10-16 22:34:47 as along with 1 person n00c
	A robust framework for detecting structural variations in a genome [My Copy] Bioinformatics In Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i59-67. by Seunghak Lee, Elango Cheran, Michael Brudno posted to structural_variation by dakelley on 2009-09-07 03:57:17 as along with 11 people n00c matted darian jonilaserson rdiaz balicea Neeperando kittipat matthewsuderman raistrick APRegier
	Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing. [My Copy] Nature genetics In Nat Genet, Vol. 40, No. 6. (27 June 2008), pp. 722-729. by Peter J. Campbell, Philip J. Stephens, Erin D. Pleasance, et al.Sarah O'Meara, Heng Li, Thomas Santarius, Lucy A. Stebbings, Catherine Leroy, Sarah Edkins, Claire Hardy, Jon W. Teague, Andrew Menzies, Ian Goodhead, Daniel J. Turner, Christopher M. Clee, Michael A. Quail, Antony Cox, Clive Brown, Richard Durbin, Matthew E. Hurles, Paul A. Edwards, Graham R. Bignell, Michael R. Stratton, P. Andrew Futreal posted to structural_variation cancer by dakelley on 2009-09-07 03:56:27 as along with 14 people shikin n00c chvlyl APRegier myzhang jessopher frohike smiddha xingxu daed matthewsuderman jfr caseybrown chrisamiller
	VarScan: variant detection in massively parallel sequencing of individual and pooled samples [My Copy] Bioinformatics, Vol. 25, No. 17. (1 September 2009), pp. 2283-2285. by Daniel C. Koboldt, Ken Chen, Todd Wylie, et al.David E. Larson, Michael D. McLellan, Elaine R. Mardis, George M. Weinstock, Richard K. Wilson, Li Ding posted to structural_variation by dakelley on 2009-08-25 23:11:37 as along with 16 people and 3 groups humburg hzoltan Peiyong darian seb1 heliopais mkiyer djkt PabloMarin guhjy n00c orzenil natstreet druvus stajich malcook Journal picks Mycology SIMR bioinformatics
	SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences [My Copy] Bioinformatics, Vol. 25, No. 14. (15 July 2009), pp. 1722-1730. by M. Monzoorul Haque, Tarini S. Ghosh, Dinakar Komanduri, Sharmila S. Mande posted to metagenomics classification by dakelley on 2009-07-28 22:18:50 as along with 5 people and 1 group sharpton sriesenfeld djkt guhjy operon iSEEM
	Finding friends and enemies in an enemies-only network: A graph diffusion kernel for predicting novel genetic interactions and co-complex membership from yeast genetic interactions [My Copy] Genome Research, Vol. 18, No. 12. (December 2008), pp. 1991-2004. by Yan Qi, Yasir Suhail, Yu-Yi Lin, Jef D. Boeke, Joel S. Bader posted to genetic-interactions by dakelley on 2009-07-24 16:51:32 as along with 6 people ajbattle colmryan carlk amonika benjaminsb guhjy
	Global synthetic-lethality analysis and yeast functional profiling. [My Copy] Trends Genet, Vol. 22, No. 1. (January 2006), pp. 56-63. by S. L. Ooi, X. Pan, B. D. Peyser, et al.P. Ye, P. B. Meluh, D. S. Yuan, R. A. Irizarry, J. S. Bader, F. A. Spencer, J. D. Boeke posted to genetic-interactions networks by dakelley on 2009-04-11 21:21:20 as along with 3 people and 2 groups xico nirfriedman nickluscombe WetBiology EBI-regulation
	The genomic architecture of segmental duplications and associated copy number variants in dogs [My Copy] Genome Research, Vol. 19, No. 3. (March 2009), pp. 491-499. by Thomas J. Nicholas, Ze Cheng, Mario Ventura, Katrina Mealey, Evan E. Eichler, Joshua M. Akey posted to duplications by dakelley on 2009-03-11 14:45:49 as along with 3 people bertrandservin rdiaz djkt

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