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	The Sequence Alignment/Map format and SAMtools. [My Copy] Bioinformatics (Oxford, England), 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 no-tag by MarkFiers on 2009-12-14 22:37:52 as along with 29 people and 2 groups n00c darian cthachuk hzoltan seb1 heliopais urgi idonaldson GustavoLacerda stubrown cassj kshameer ciax polivares carlosjavierna jandot katholt jmcq guhjy orzenil jasontsai operon farhat AlexBateman chrisamiller nuin natstreet sandfire druvus BergmanLab Journal picks
	Population Genetic Inference From Resequencing Data [My Copy] Genetics In Genetics, Vol. 181, No. 1. (1 January 2009), pp. 187-197. by Rong Jiang, Simon Tavare, Paul Marjoram posted to no-tag by MarkFiers on 2009-12-14 20:35:50 as along with 12 people and 3 groups n00c scmelton taylor73 maren jbsaltz dpollard katholt natstreet djkt abizar druvus stajich RockmanLab iSEEM Mycology
	Computational identification of 48 potato microRNAs and their targets [My Copy] Computational Biology and Chemistry, Vol. 33, No. 1. (February 2009), pp. 84-93. by W ZHANG,, Y LUO,, X GONG,, W ZENG,, S LI, posted to potato microrna bioinformatics by MarkFiers on 2009-12-07 03:54:01 as
	Babel's tower revisited: a universal resource for cross-referencing across annotation databases. [My Copy] Bioinformatics (26 October 2006) by Sorin Draghici, Sivakumar Sellamuthu, Purvesh Khatri posted to ontology ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:37 as
	MUSA: a parameter free algorithm for the identification of biologically significant motifs. [My Copy] Bioinformatics (26 October 2006) by Nuno D. D. Mendes, Ana C. C. Casimiro, Pedro M. M. Santos, Isabel Sá-Correia, Arlindo L. L. Oliveira, Ana T. T. Freitas posted to ofgenomicresequencing motif detection analysis by MarkFiers on 2009-12-06 21:30:37 as
	PROTERAN: animated terrain evolution for visual analysis of patterns in protein folding trajectory. [My Copy] Bioinformatics (24 October 2006) by Ruhong Zhou, Laxmi Parida, Kush Kapila, Sudhir Mudur posted to protein ofgenomicresequencing folding analysis by MarkFiers on 2009-12-06 21:30:37 as
	PSoL: a positive sample only learning algorithm for finding non-coding RNA genes. [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2590-2596. by C. Wang, C. Ding, R. F. Meraz, S. R. Holbrook posted to ofgenomicresequencing ncrna detection analysis by MarkFiers on 2009-12-06 21:30:37 as
	Bio3d: an R package for the comparative analysis of protein structures. [My Copy] Bioinformatics (29 August 2006) by Barry J. J. Grant, Ana P. C. P. Rodrigues, Karim M. M. Elsawy, McCammon, Leo S. D. S. Caves posted to structure r protein ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:37 as
	iFold: a platform for interactive folding simulations of proteins. [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2693-2694. by S. Sharma, F. Ding, H. Nie, et al.D. Watson, A. Unnithan, J. Lopp, D. Pozefsky, N. V. Dokholyan posted to protein ofgenomicresequencing folding analysis by MarkFiers on 2009-12-06 21:30:35 as
	MMM: a sequence-to-structure alignment protocol. [My Copy] Bioinformatics, Vol. 22, No. 21. (1 November 2006), pp. 2691-2692. by B. K. Rai, C. J. Madrid-Aliste, J. E. Fajardo, A. Fiser posted to structure sequence ofgenomicresequencing analysis alignment by MarkFiers on 2009-12-06 21:30:35 as
	Significant sequence similarities in promoters and precursors of Arabidopsis thaliana non-conserved microRNAs. [My Copy] Bioinformatics (10 August 2006) by Yu Wang, Tobias Hindemitt, Klaus F. X. F. Mayer posted to promoter ofgenomicresequencing mirna arabidopsis analysis by MarkFiers on 2009-12-06 21:30:35 as
	KGraph: a system for visualizing and evaluating complex genetic associations. [My Copy] Bioinformatics (10 October 2006) by Reagan J. J. Kelly, Douglas M. M. Jacobsen, Yan V. V. Sun, Jennifer A. A. Smith, Sharon L. R. L. Kardia posted to visualization ofgenomicresequencing genetic association analysis by MarkFiers on 2009-12-06 21:30:35 as
	Identifying cis-regulatory modules by combining comparative and compositional analysis of DNA. [My Copy] Bioinformatics (10 October 2006) by Nora Pierstorff, Casey M. M. Bergman, Thomas Wiehe posted to regulatory ofgenomicresequencing motif dna comparative analysis by MarkFiers on 2009-12-06 21:30:35 as
	Robust method for detecting differential gene expression in twin studies. [My Copy] Bioinformatics (10 October 2006) by Alexander Begun posted to twin ofgenomicresequencing gene expression differential analysis by MarkFiers on 2009-12-06 21:30:35 as
	Mining frequent stem patterns from unaligned RNA sequences. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 20. (15 October 2006), pp. 2480-2487. by M. Hamada, K. Tsuda, T. Kudo, T. Kin, K. Asai posted to stem rna pattern ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:35 as
	PYCHEM: a multivariate analysis package for python. [My Copy] Bioinformatics, Vol. 22, No. 20. (15 October 2006), pp. 2565-2566. by R. M. Jarvis, D. Broadhurst, H. Johnson, N. M. O'Boyle, R. Goodacre posted to statistics python ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:35 as
	Prediction of mRNA polyadenylation sites by support vector machine. [My Copy] Bioinformatics, Vol. 22, No. 19. (1 October 2006), pp. 2320-2325. by Y. Cheng, R. M. Miura, B. Tian posted to svn polya ofgenomicresequencing mrna analysis by MarkFiers on 2009-12-06 21:30:35 as
	Bayesian search of functionally divergent protein subgroups and their function specific residues. [My Copy] Bioinformatics (26 July 2006) by Pekka Marttinen, Jukka Corander, Petri Törönen, Liisa Holm posted to prediction ofgenomicresequencing function bayesian analysis by MarkFiers on 2009-12-06 21:30:35 as
	CGAT: a comparative genome analysis tool for visualizing alignments in the analysis of complex evolutionary changes between closely related genomes [My Copy] BMC Bioinformatics, Vol. 7 (24 October 2006), 472. by Ikuo Uchiyama, Toshio Higuchi, Ichizo Kobayashi posted to visualization ofgenomicresequencing genome comparative analysis by MarkFiers on 2009-12-06 21:30:35 as
	The accuracy of several multiple sequence alignment programs for proteins [My Copy] BMC Bioinformatics, Vol. 7, No. 1. (24 October 2006), 471. by Paulo Nuin, Zhouzhi Wang, Elisabeth Tillier posted to sequence protein ofgenomicresequencing multiple analysis alignment by MarkFiers on 2009-12-06 21:30:34 as
	Imagene: an integrated computer environment for sequence annotation and analysis. [My Copy] Bioinformatics, Vol. 15, No. 1. (January 1999), pp. 2-15. by C. Médigue, F. Rechenmann, A. Danchin, A. Viari posted to pipeline ofgenomicresequencing automated annotation analysis by MarkFiers on 2009-12-06 21:30:34 as
	Genepi: a blackboard framework for genome annotation [My Copy] BMC Bioinformatics, Vol. 7 (12 October 2006), 450. by Stephane Descorps-Declere, Danielle Ziebelin, Francois Rechenmann, Alain Viari posted to ofgenomicresequencing genome annotation analysis by MarkFiers on 2009-12-06 21:30:34 as
	Gene function classification using Bayesian models with hierarchy-based priors [My Copy] BMC Bioinformatics, Vol. 7 (12 October 2006), 448. by Babak Shahbaba, Radford M. Neal posted to ofgenomicresequencing gene function bayesian analysis by MarkFiers on 2009-12-06 21:30:34 as
	Prediction of trans-antisense transcripts in Arabidopsis thaliana [My Copy] Genome Biology, Vol. 7 (13 October 2006), R92. by Huan Wang, Nam-Hai Chua, Xiu-Jie Wang posted to transcripts trans ofgenomicresequencing arabidopsis antisense analysis by MarkFiers on 2009-12-06 21:30:34 as
	Community annotation: Procedures, protocols, and supporting tools. [My Copy] Genome Res (25 October 2006) by Christine G. G. Elsik, Kim C. C. Worley, Lan Zhang, et al.Natalia V. V. Milshina, Huaiyang Jiang, Justin T. T. Reese, Kevin L. L. Childs, Anand Venkatraman, Dickens, George M. M. Weinstock, Richard A. A. Gibbs posted to ofgenomicresequencing genome community annotation analysis by MarkFiers on 2009-12-06 21:30:34 as
	Origins and impact of constraints in evolution of gene families [My Copy] Genome Research, Vol. 16, No. 12. (19 December 2006), pp. 1529-1536. by Boris E. Shakhnovich, Eugene V. Koonin posted to ofgenomicresequencing gene family evolution analysis by MarkFiers on 2009-12-06 21:30:34 as
	MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant. [My Copy] Genome Res (5 September 2006) by Cheng Lu, Karthik Kulkarni, Frédéric F. F. Souret, et al.Ramesh Muthuvalliappan, Shivakundan S. Tej, Poethig, Ian R. R. Henderson, Steven E. E. Jacobsen, Wenzhong Wang, Pamela J. J. Green, Blake C. C. Meyers posted to rdrp ofgenomicresequencing mutant mirna arabidopsis analysis by MarkFiers on 2009-12-06 21:30:33 as
	Many novel mammalian microRNA candidates identified by extensive cloning and RAKE analysis. [My Copy] Genome Res (5 September 2006) by Eugene Berezikov, Geert van Tetering, Mark Verheul, et al.Jose van de Belt, Linda van Laake, Joost Vos, Robert Verloop, Marc van de Wetering, Victor Guryev, Shuji Takada, Anton Jan van Zonneveld, Hiroyuki Mano, Ronald Plasterk, Edwin Cuppen posted to rake ofgenomicresequencing mirna analysis by MarkFiers on 2009-12-06 21:30:33 as
	In plants, highly expressed genes are the least compact. [My Copy] Trends Genet, Vol. 22, No. 10. (October 2006), pp. 528-532. by X. Y. Ren, O. Vorst, M. W. Fiers, W. J. Stiekema, J. P. Nap posted to plant ofgenomicresequencing gene expression analysis by MarkFiers on 2009-12-06 21:30:33 as
	The heavy metal hyperaccumulator Thlaspi caerulescens expresses many species-specific genes, as identified by comparative expressed sequence tag analysis [My Copy] New Phytologist, Vol. 170, No. 4. (June 2006), pp. 753-766. by Diana Rigola, Mark Fiers, Emanuela Vurro, Mark G. Aarts posted to thlaspi ofgenomicresequencing heavy-metal analysis by MarkFiers on 2009-12-06 21:30:33 as
	DNAVis: interactive visualization of comparative genome annotations. [My Copy] Bioinformatics, Vol. 22, No. 3. (1 February 2006), pp. 354-355. by M. W. Fiers, H. van de Wetering, T. H. Peeters, J. J. van Wijk, J. P. Nap posted to visualization genome comparative annotation analysis by MarkFiers on 2009-12-06 21:30:33 as
	PRECISE: software for prediction of cis-acting regulatory elements. [My Copy] J Hered, Vol. 96, No. 5. (2005), pp. 618-622. by L. M. Trindade, R. van Berloo, M. Fiers, R. G. Visser posted to regulatory prediction ofgenomicresequencing elements analysis by MarkFiers on 2009-12-06 21:30:33 as
	Local coexpression domains of two to four genes in the genome of Arabidopsis. [My Copy] Plant Physiol, Vol. 138, No. 2. (June 2005), pp. 923-934. by X. Y. Ren, M. W. Fiers, W. J. Stiekema, J. P. Nap posted to ofgenomicresequencing coexpression arabidopsis analysis by MarkFiers on 2009-12-06 21:30:33 as
	Allermatch, a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines. [My Copy] BMC Bioinformatics, Vol. 5 (16 September 2004) by M. W. Fiers, G. A. Kleter, H. Nijland, A. A. Peijnenburg, J. P. Nap, R. C. van Ham posted to prediction potential ofgenomicresequencing analysis allergenicity by MarkFiers on 2009-12-06 21:30:33 as
	What drives plant stress genes? [My Copy] Trends Plant Sci, Vol. 8, No. 3. (March 2003), pp. 99-102. by M. G. Aarts, M. W. Fiers posted to stress plant ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:33 as
	Complete genome sequence of Lactobacillus plantarum WCFS1. [My Copy] Proc Natl Acad Sci U S A, Vol. 100, No. 4. (18 February 2003), pp. 1990-1995. by M. Kleerebezem, J. Boekhorst, R. van Kranenburg, et al.D. Molenaar, O. P. Kuipers, R. Leer, R. Tarchini, S. A. Peters, H. M. Sandbrink, M. W. Fiers, W. Stiekema, R. M. Lankhorst, P. A. Bron, S. M. Hoffer, M. N. Groot, R. Kerkhoven, M. de Vries, B. Ursing, W. M. de Vos, R. J. Siezen posted to sequence ofgenomicresequencing lactobacillus genome analysis by MarkFiers on 2009-12-06 21:30:33 as
	The white spot syndrome virus DNA genome sequence. [My Copy] Virology, Vol. 286, No. 1. (20 July 2001), pp. 7-22. by M. C. van Hulten, J. Witteveldt, S. Peters, et al.N. Kloosterboer, R. Tarchini, M. Fiers, H. Sandbrink, R. K. Lankhorst, J. M. Vlak posted to virus sequence ofgenomicresequencing genome dna analysis by MarkFiers on 2009-12-06 21:30:33 as
	Evolution of MicroRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 334-350. by A. Tranzer, P. F. Stadler posted to ofgenomicresequencing mirna evolution analysis by MarkFiers on 2009-12-06 21:30:33 as
	Gene silencing in vitro and in vivo using intronic microRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 295-312. by S. L. Lin, S. Y. Ying posted to silencing ofgenomicresequencing mirna intron gene analysis by MarkFiers on 2009-12-06 21:30:33 as
	Methodologies for high-throughput expression profiling of microRNAs. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 139-157. by P. Einat posted to profiling ofgenomicresequencing mirna expression analysis by MarkFiers on 2009-12-06 21:30:33 as
	Complications in mammalian microRNA target prediction. [My Copy] Methods Mol Biol, Vol. 342 (2006), pp. 115-127. by N. R. Smalheiser, V. I. Torvik posted to target ofgenomicresequencing mirna analysis by MarkFiers on 2009-12-06 21:30:33 as
	OmicBrowse: a browser of multidimensional omics annotations. [My Copy] Bioinformatics (31 October 2006) by Tetsuro Toyoda, Yoshiki Mochizuki, Keith Player, Naohiko Heida, Yoshiyuki Sakaki posted to visualization omics ofgenomicresequencing analysis by MarkFiers on 2009-12-06 21:30:33 as
	GECO - linear visualization for comparative genomics. [My Copy] Bioinformatics (31 October 2006) by C. T. T. Kuenne, R. Ghai, T. Chakraborty, T. Hain posted to visualization ofgenomicresequencing genomics comparative analysis by MarkFiers on 2009-12-06 21:30:33 as
	Natural selection on human microRNA binding sites inferred from SNP data [My Copy] Nature Genetics, Vol. 38, No. 12. (29 October 2006), pp. 1452-1456. by Kevin Chen, Nikolaus Rajewsky posted to ofgenomicresequencing natural_selection mirna binding_site analysis by MarkFiers on 2009-12-06 21:30:33 as
	DNA methylation profiling of human chromosomes 6, 20 and 22. [My Copy] Nat Genet (29 October 2006) by Florian Eckhardt, Joern Lewin, Rene Cortese, et al.Vardhman K. K. Rakyan, John Attwood, Matthias Burger, John Burton, Tony V. V. Cox, Rob Davies, Thomas A. A. Down, Carolina Haefliger, Roger Horton, Kevin Howe, David K. K. Jackson, Jan Kunde, Christoph Koenig, Jennifer Liddle, David Niblett, Thomas Otto, Roger Pettett, Stefanie Seemann, Christian Thompson, Tony West, Jane Rogers, Alex Olek, Kurt Berlin, Stephan Beck posted to ofgenomicresequencing methylation human dna analysis by MarkFiers on 2009-12-06 21:30:33 as
	Elucidation of the Small RNA Component of the Transcriptome [My Copy] Science, Vol. 309, No. 5740. (2 September 2005), pp. 1567-1569. by Cheng Lu, Shivakundan S. Tej, Shujun Luo, Christian D. Haudenschild, Blake C. Meyers, Pamela J. Green posted to small rna ofgenomicresequencing arabidopsis analysis by MarkFiers on 2009-12-06 21:30:33 as
	Computational prediction of miRNAs in Arabidopsis thaliana. [My Copy] Genome Res, Vol. 15, No. 1. (January 2005), pp. 78-91. by A. Adai, C. Johnson, S. Mlotshwa, et al.S. Archer-Evans, V. Manocha, V. Vance, V. Sundaresan posted to prediction ofgenomicresequencing mirna arabidopsis analysis by MarkFiers on 2009-12-06 21:30:33 as
	MicroRNAs and Their Regulatory Roles in Plants. [My Copy] Annu Rev Plant Biol (30 January 2006) by Matthew W. W. Jones-Rhoades, David P. P. Bartel, Bonnie Bartel posted to role regulatory plant ofgenomicresequencing mirna analysis by MarkFiers on 2009-12-06 21:30:33 as
	Identification of novel regulatory modules in dicot plants using expression data and comparative genomics [My Copy] Genome Biology, Vol. 7 (07 November 2006), R103. by Klaas Vandepoele, Tineke Casneuf, Yves Van de Peer posted to regulatory ofgenomicresequencing modules genomics expression comparative analysis by MarkFiers on 2009-12-06 21:30:33 as
	Phylo-VISTA: interactive visualization of multiple DNA sequence alignments. [My Copy] Bioinformatics, Vol. 20, No. 5. (22 March 2004), pp. 636-643. by N. Shah, O. Couronne, L. A. Pennacchio, et al.M. Brudno, S. Batzoglou, E. W. Bethel, E. M. Rubin, B. Hamann, I. Dubchak posted to visualization ofgenomicresequencing dna analysis by MarkFiers on 2009-12-06 21:30:33 as

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comparative	5
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encode	1
methylation	1
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rake	1
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functional	1
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