wenhan's Top Recommendations

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	Gene finding with a hidden Markov model of genome structure and evolution [My Copy] Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 219-227. by Jakob S. Pedersen, Jotun Hein posted by 9 people gjuggler jmartin49 GustavoLacerda indigoviolet redelings stajich azazello EisenLab MBLAB
	Whole-genome re-sequencing. [My Copy] Current opinion in genetics & development In Genomes and evolution, Vol. 16, No. 6. (December 2006), pp. 545-552. by David R. Bentley posted by 18 people pristanna rshe druvus n00c anuskap mmartin jameswasmuth usagi-kirin jmeppley frohike indigoviolet dchughes azazello EisenLab G4ID Genetics-of-Gambling jo_davies kmdaily
	Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. [My Copy] Nucleic acids research, Vol. 25, No. 17. (1 September 1997), pp. 3389-3402. by S. F. Altschul, T. L. Madden, A. A. Schäffer, et al.J. Zhang, Z. Zhang, W. Miller, D. J. Lipman posted by 75 people saunders rshe niallhaslam ucbcjbm timhubbard parnell tfuji maria_hauser jbhiatt yylin mgomes BioNica idoerg pjcite swp09 kgutwin mcbla cpwardell References for 3DSim paper johanviklund daforerog nlapalu sebk tjimenez shung pwais dakelley knaseanka setar iakes miguel kaarsinogen bjorns bicko jmeppley chad_davis balajis nuke2005 eweaver david_parsons indigoviolet dullhunk robert dgront happy_manatee caporaso treangen kengg manzanita CitoJam jdelcampo aengisch rabio massivemayhem mirzazadeh azazello sujaikumar beatrizfernandez GustavoLacerda siebertm adijr viktor21614 EisenLab biomedical-nlp Microbial-Ecology Plantandetc mijam grottenolm bandrewfox edvin newton1234 mariakmejia granujilla marti CharlesM
	TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders [My Copy] Bioinformatics, Vol. 20, No. 16. (1 November 2004), pp. 2878-2879. by W. H. Majoros, M. Pertea, S. L. Salzberg posted by 5 people jmartin49 indigoviolet GustavoLacerda EisenLab alexl
	GeneComber: combining outputs of gene prediction programs for improved results [My Copy] Bioinformatics, Vol. 19, No. 10. (1 July 2003), pp. 1296-1297. by Sohrab P. Shah, Graham P. Mcvicker, Alan K. Mackworth, Sanja Rogic, Francis B. F. Ouellette posted by 3 people jmartin49 indigoviolet EisenLab
	A Bayesian framework for combining gene predictions [My Copy] Bioinformatics, Vol. 18, No. 1. (1 January 2002), pp. 19-27. by Vladimir Pavlovic, Ashutosh Garg, Simon Kasif posted by 3 people jmartin49 indigoviolet EisenLab
	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 by 12 people operon thegoose2 jmartin49 C. elegans / WormBase tharris druvus indigoviolet stajich GustavoLacerda EisenLab dmc Durbin group
	Computational approaches to gene prediction. [My Copy] J Microbiol, Vol. 44, No. 2. (April 2006), pp. 137-144. by J. H. Do, D. K. Choi posted by 5 people svozil jmartin49 indigoviolet GustavoLacerda EisenLab
	Computer programs for eukaryotic gene prediction [My Copy] Brief Bioinform, Vol. 3, No. 2. (1 January 2002), pp. 195-199. by Vladimir Makarov posted by 3 people rshe jmartin49 GustavoLacerda
	Human-mouse gene identification by comparative evidence integration and evolutionary analysis. [My Copy] Genome Res, Vol. 13, No. 6A. (June 2003), pp. 1190-1202. by L. Zhang, V. Pavlovic, C. R. Cantor, S. Kasif posted by 4 people indigoviolet azazello EisenLab MBLAB
	Accurate whole human genome sequencing using reversible terminator chemistry [My Copy] Nature In Nature, Vol. 456, No. 7218. (06 November 2008), pp. 53-59. posted by 32 people jmanning2k hzoltan rshe pst gbenson giovenko n00c clearbluespring xingxu dna austin jessopher daforerog vmsr jfr azazello nuin usagi-kirin Archaeogenetics SIMR bioinformatics malcook psique tsherig jbhiatt pengchy reyez jmcq inesdesantiago ojabado caseybrown pkonings djkt
	Accurate multiplex polony sequencing of an evolved bacterial genome. [My Copy] Science (New York, N.Y.), Vol. 309, No. 5741. (9 September 2005), pp. 1728-1732. by Jay Shendure, Gregory J. Porreca, Nikos B. Reppas, et al.Xiaoxia Lin, John P. McCutcheon, Abraham M. Rosenbaum, Michael D. Wang, Kun Zhang, Robi D. Mitra, George M. Church posted by 13 people rshe jbhiatt azazello frohike arve balajis dchughes AaronDarling xingxu G4ID Genetics-of-Gambling nhp bozdagd
	Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. [My Copy] Science (New York, N.Y.), Vol. 269, No. 5223. (28 July 1995), pp. 496-512. by R. D. Fleischmann, M. D. Adams, O. White, et al.R. A. Clayton, E. F. Kirkness, A. R. Kerlavage, C. J. Bult, J. F. Tomb, B. A. Dougherty, J. M. Merrick posted by 8 people rshe azazello katholt johanviklund Cortel dgront treangen hsekiguc
	Formation of mRNA 3' ends in eukaryotes: mechanism, regulation, and interrelationships with other steps in mRNA synthesis. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 63, No. 2. (June 1999), pp. 405-445. by J. Zhao, L. Hyman, C. Moore posted by 2 people jmartin49 alexl
	Efficient decoding algorithms for generalized hidden Markov model gene finders. [My Copy] BMC Bioinformatics, Vol. 6 (2005) by W. H. Majoros, M. Pertea, A. L. Delcher, S. L. Salzberg posted by 4 people jmartin49 mdimon alexl nedwards
	Genome annotation: from sequence to biology. [My Copy] Nature reviews. Genetics, Vol. 2, No. 7. (July 2001), pp. 493-503. by L. Stein posted by 5 people rshe stharward indigoviolet dullhunk EisenLab
	The generic genome browser: a building block for a model organism system database. [My Copy] Genome research, Vol. 12, No. 10. (October 2002), pp. 1599-1610. by Lincoln D. Stein, Christopher Mungall, ShengQiang Shu, et al.Michael Caudy, Marco Mangone, Allen Day, Elizabeth Nickerson, Jason E. Stajich, Todd W. Harris, Adrian Arva, Suzanna Lewis posted by 15 people bertelsen rshe inesdesantiago Scis0000002 thegoose2 taroleo Cortel indigoviolet dquest stajich natstreet EisenLab dullhunk tharris farhat
	Gene structure conservation aids similarity based gene prediction. [My Copy] Nucleic acids research, Vol. 32, No. 2. (2004), pp. 776-783. by Irmtraud M. Meyer, Richard Durbin posted by 5 people rshe indigoviolet EisenLab acarbo ep161302
	The Ensembl automatic gene annotation system. [My Copy] Genome research, Vol. 14, No. 5. (1 May 2004), pp. 942-950. by Val Curwen, Eduardo Eyras, T. Daniel Andrews, et al.Laura Clarke, Emmanuel Mongin, Steven M. Searle, Michele Clamp posted by 9 people rshe stharward druvus giovenko indigoviolet incovoma nicholso EisenLab maximilianh
	Initial sequence of the chimpanzee genome and comparison with the human genome. [My Copy] Nature, Vol. 437, No. 7055. (1 September 2005), pp. 69-87. by Chimpanzee Sequencing and Analysis Consortium posted by 16 people rshe ThomasDOtto cannin chrn aprasad great_apes indigoviolet dullhunk djkt JeffR100 Garamonfok biodiversity_conservation EisenLab iris42 rvosa FAB-lab
	Initial sequencing and comparative analysis of the mouse genome. [My Copy] Nature, Vol. 420, No. 6915. (5 December 2002), pp. 520-562. by Mouse Genome Sequencing Consortium, Robert H. Waterston, Kerstin Lindblad-Toh, et al.Ewan Birney, Jane Rogers, Josep F. Abril, Pankaj Agarwal, Richa Agarwala, Rachel Ainscough, Marina Alexandersson, Peter An, Stylianos E. Antonarakis, John Attwood, Robert Baertsch, Jonathon Bailey, Karen Barlow, Stephan Beck, Eric Berry, Bruce Birren, Toby Bloom, Peer Bork, Marc Botcherby, Nicolas Bray, Michael R. Brent, Daniel G. Brown, Stephen D. Brown, Carol Bult, John Burton, Jonathan Butler, Robert D. Campbell, Piero Carninci, Simon Cawley, Francesca Chiaromonte, Asif T. Chinwalla, Deanna M. Church, Michele Clamp, Christopher Clee, Francis S. Collins, Lisa L. Cook, Richard R. Copley, Alan Coulson, Olivier Couronne, James Cuff, Val Curwen, Tim Cutts, Mark Daly, Robert David, Joy Davies, Kimberly D. Delehaunty, Justin Deri, Emmanouil T. Dermitzakis, Colin Dewey, Nicholas J. Dickens, Mark Diekhans, Sheila Dodge, Inna Dubchak, Diane M. Dunn, Sean R. Eddy, Laura Elnitski, Richard D. Emes, Pallavi Eswara, Eduardo Eyras, Adam Felsenfeld, Ginger A. Fewell, Paul Flicek, Karen Foley, Wayne N. Frankel, Lucinda A. Fulton, Robert S. Fulton, Terrence S. Furey, Diane Gage, Richard A. Gibbs, Gustavo Glusman, Sante Gnerre, Nick Goldman, Leo Goodstadt, Darren Grafham, Tina A. Graves, Eric D. Green, Simon Gregory, Roderic Guigó, Mark Guyer, Ross C. Hardison, David Haussler, Yoshihide Hayashizaki, LaDeana W. Hillier, Angela Hinrichs, Wratko Hlavina, Timothy Holzer, Fan Hsu, Axin Hua, Tim Hubbard, Adrienne Hunt, Ian Jackson, David B. Jaffe, L. Steven Johnson, Matthew Jones, Thomas A. Jones, Ann Joy, Michael Kamal, Elinor K. Karlsson, Donna Karolchik, Arkadiusz Kasprzyk, Jun Kawai, Evan Keibler, Cristyn Kells, W. James Kent, Andrew Kirby, Diana L. Kolbe, Ian Korf, Raju S. Kucherlapati, Edward J. Kulbokas, David Kulp, Tom Landers, J. P. Leger, Steven Leonard, Ivica Letunic, Rosie Levine, Jia Li, Ming Li, Christine Lloyd, Susan Lucas, Bin Ma, Donna R. Maglott, Elaine R. Mardis, Lucy Matthews, Evan Mauceli, John H. Mayer, Megan McCarthy, W. Richard McCombie, Stuart McLaren, Kirsten McLay, John D. McPherson, Jim Meldrim, Beverley Meredith, Jill P. Mesirov, Webb Miller, Tracie L. Miner, Emmanuel Mongin, Kate T. Montgomery, Michael Morgan, Richard Mott, James C. Mullikin, Donna M. Muzny, William E. Nash, Joanne O. Nelson, Michael N. Nhan, Robert Nicol, Zemin Ning, Chad Nusbaum, Michael J. O'Connor, Yasushi Okazaki, Karen Oliver, Emma Overton-Larty, Lior Pachter, Genís Parra, Kymberlie H. Pepin, Jane Peterson, Pavel Pevzner, Robert Plumb, Craig S. Pohl, Alex Poliakov, Tracy C. Ponce, Chris P. Ponting, Simon Potter, Michael Quail, Alexandre Reymond, Bruce A. Roe, Krishna M. Roskin, Edward M. Rubin, Alistair G. Rust, Ralph Santos, Victor Sapojnikov, Brian Schultz, Jörg Schultz, Matthias S. Schwartz, Scott Schwartz, Carol Scott, Steven Seaman, Steve Searle, Ted Sharpe, Andrew Sheridan, Ratna Shownkeen, Sarah Sims, Jonathan B. Singer, Guy Slater, Arian Smit, Douglas R. Smith, Brian Spencer, Arne Stabenau, Nicole Stange-Thomann, Charles Sugnet, Mikita Suyama, Glenn Tesler, Johanna Thompson, David Torrents, Evanne Trevaskis, John Tromp, Catherine Ucla, Abel Ureta-Vidal, Jade P. Vinson, Andrew C. Von Niederhausern, Claire M. Wade, Melanie Wall, Ryan J. Weber, Robert B. Weiss, Michael C. Wendl, Anthony P. West, Kris Wetterstrand, Raymond Wheeler, Simon Whelan, Jamey Wierzbowski, David Willey, Sophie Williams, Richard K. Wilson, Eitan Winter, Kim C. Worley, Dudley Wyman, Shan Yang, Shiaw-Pyng P. Yang, Evgeny M. Zdobnov, Michael C. Zody, Eric S. Lander posted by 27 people rshe seb1 ajbattle jmanning2k timhubbard taroleo fisherp dkulp sdinka Cortel jwortman Dax42 aprasad ccots indigoviolet adepace treangen joshuashen djkt stajich olympos hausen EisenLab Mycology yoanjacquemin elfar kevinemamy
	Gene prediction in metagenomic fragments: A large scale machine learning approach [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (28 April 2008), 217. by Katharina Hoff, Maike Tech, Thomas Lingner, Rolf Daniel, Burkhard Morgenstern, Peter Meinicke posted by 12 people mpizbioinfo elipapa Thaverkamp idoerg druvus alexl mjetten anammox microbiology_nijmegen stajich Mycology azazello
	Binning sequences using very sparse labels within a metagenome [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (28 April 2008), 215. by Chon K. Chan, Arthur Hsu, Saman Halgamuge, Sen L. Tang posted by 19 people CorinYeats ajsferreira skembel esyoun sriesenfeld jmeppley dakelley Bioinformatics Thaverkamp idoerg azazello druvus alexl mjetten microbiology_nijmegen werwiesel jlgreen iSEEM djkt
	Metagenomics: Read Length Matters [My Copy] Appl. Environ. Microbiol., Vol. 74, No. 5. (1 March 2008), pp. 1453-1463. by K. Eric Wommack, Jaysheel Bhavsar, Jacques Ravel posted by 18 people n00c michaelbarton jbhiatt skembel Papers recommended by the Roscoff Plankton Group vaulot djkt iSEEM jmeppley azazello Microbial-Ecology microbiology_nijmegen Thaverkamp skato_toyaku rvgomes alexisfjdufresne alexl bluto
	Evigan: A Hidden Variable Model for Integrating Gene Evidence for Eukaryotic Gene Prediction. [My Copy] Bioinformatics (10 January 2008) by Qian Liu, Aaron J J. Mackey, David S S. Roos, Fernando C N C. Pereira posted by 10 people bourby azazello GustavoLacerda druvus stajich EisenLab mingzhi Mycology gongScience alexl
	Use of simulated data sets to evaluate the fidelity of metagenomic processing methods [My Copy] Nature Methods, Vol. 4, No. 6. (29 April 2007), pp. 495-500. by Konstantinos Mavromatis, Natalia Ivanova, Kerrie Barry, et al.Harris Shapiro, Eugene Goltsman, Alice C. McHardy, Isidore Rigoutsos, Asaf Salamov, Frank Korzeniewski, Miriam Land, Alla Lapidus, Igor Grigoriev, Paul Richardson, Philip Hugenholtz, Nikos C. Kyrpides posted by 26 people 8_01 klo CorinYeats dutilh dakelley taylor73 sriesenfeld Thaverkamp skembel druvus Yanno oamg jmeppley bluto azazello GustavoLacerda Glimcher_Lab Bioinformatics carlk alexl mjetten microbiology_nijmegen jlgreen Green Lab iSEEM djkt
	Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes. [My Copy] Genome Biol, Vol. 5, No. 9. (2004) by Y. Liu, P. M. Harrison, V. Kunin, M. Gerstein posted by 4 people operon azazello alexl MBLAB
	ICDS database: interrupted CoDing sequences in prokaryotic genomes. [My Copy] Nucleic Acids Res, Vol. 34, No. Database issue. (1 January 2006) by E. Perrodou, C. Deshayes, J. Muller, et al.C. Schaeffer, A. Van Dorsselaer, R. Ripp, O. Poch, J. M. Reyrat, O. Lecompte posted by 2 people azazello alexl
	PairWise and SearchWise: finding the optimal alignment in a simultaneous comparison of a protein profile against all DNA translation frames [My Copy] Nucl. Acids Res., Vol. 24, No. 14. (15 July 1996), pp. 2730-2739. by E. Birney, Jd Thompson, Tj Gibson posted by 3 people azazello alexl MBLAB
	Finding novel genes in bacterial communities isolated from the environment. [My Copy] Bioinformatics, Vol. 22, No. 14. (15 July 2006) by L. Krause, N. N. Diaz, D. Bartels, et al.R. A. Edwards, A. Pühler, F. Rohwer, F. Meyer, J. Stoye posted by 4 people idoerg azazello MBLAB alexl
	Comparison of DNA sequences with protein sequences. [My Copy] Genomics, Vol. 46, No. 1. (15 November 1997), pp. 24-36. by W. R. Pearson, T. Wood, Z. Zhang, W. Miller posted by 3 people azazello alexl MBLAB
	FrameD: A flexible program for quality check and gene prediction in prokaryotic genomes and noisy matured eukaryotic sequences. [My Copy] Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3738-3741. by T. Schiex, J. Gouzy, A. Moisan, Y. de Oliveira posted by 3 people azazello alexl MBLAB
	Frame: detection of genomic sequencing errors. [My Copy] Bioinformatics, Vol. 14, No. 4. (1998), pp. 367-371. by N. P. Brown, C. Sander, P. Bork posted by 3 people azazello alexl MBLAB
	Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors? [My Copy] Genome Biology, Vol. 8 (12 February 2007), R20. by Caroline Deshayes, Emmanuel Perrodou, Sebastien Gallien, et al.Daniel Euphrasie, Christine Schaeffer, Alain Van-Dorsselaer, Olivier Poch, Odile Lecompte, Jean-Marc Reyrat posted by 4 people azazello alexl nitiniitk MBLAB
	Psi-Phi: Exploring the outer limits of bacterial pseudogenes [My Copy] Genome Res., Vol. 14, No. 11. (1 November 2004), pp. 2273-2278. by Emmanuelle Lerat, Howard Ochman posted by 6 people treangen operon AaronDarling azazello alexl MBLAB
	Recognizing the pseudogenes in bacterial genomes. [My Copy] Nucleic Acids Res, Vol. 33, No. 10. (2005), pp. 3125-3132. by E. Lerat, H. Ochman posted by 4 people manzanita azazello alexl MBLAB
	Gene structure prediction from consensus spliced alignment of multiple ESTs matching the same genomic locus. [My Copy] Bioinformatics (Oxford, England), Vol. 20, No. 7. (1 May 2004), pp. 1157-1169. by Volker Brendel, Liqun Xing, Wei Zhu posted by 2 people rshe alexl
	A Novel Bacterial Gene-Finding System with Improved Accuracy in Locating Start Codons [My Copy] DNA Res, Vol. 8, No. 3. (1 January 2001), pp. 97-106. by Tetsushi Yada, Yasushi Totoki, Toshihisa Takagi, Kenta Nakai posted by 1 person jmartin49
	Discovery and revision of Arabidopsis genes by proteogenomics [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 52. (30 December 2008), pp. 21034-21038. by Natalie E. Castellana, Samuel H. Payne, Zhouxin Shen, Mario Stanke, Vineet Bafna, Steven P. Briggs posted by 6 people natstreet dandaman brianb nedwards TRHvidsten jmartin49
	Prediction of gene structure1 [My Copy] Journal of Molecular Biology*, Vol. 226, No. 1. (July 1992), pp. 141-157. by R. Guigo posted by 1 person jmartin49
	A Class of Edit Kernels for SVMs to Predict Translation Initiation Sites in Eukaryotic mRNAs [My Copy] Journal of Computational Biology, Vol. 12, No. 6. (2005), pp. 702-718. by Haifeng Li, Tao Jiang posted by 1 person jmartin49
	Recognition of translation initiation sites of eukaryotic genes based on an EM algorithm. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 10, No. 5. (2003), pp. 699-708. by Y. Wang, H. Ou, F. Guo posted by 1 person jmartin49
	Assessing protein coding region integrity in cDNA sequencing projects [My Copy] Bioinformatics, Vol. 14, No. 5. (1 June 1998), pp. 384-390. by A. A. Salamov, T. Nishikawa, M. B. Swindells posted by 1 person jmartin49
	Engineering support vector machine kernels that recognize translation initiation sites [My Copy] Bioinformatics, Vol. 16, No. 9. (1 September 2000), pp. 799-807. by A. Zien, G. Ratsch, S. Mika, B. Scholkopf, T. Lengauer, K. R. Muller posted by 2 people barmak7282 jmartin49
	A method for identifying splice sites and translational start sites in eukaryotic mRNA [My Copy] Comput. Appl. Biosci., Vol. 13, No. 4. (1 August 1997), pp. 365-376. by Steven L. Salzberg posted by 1 person jmartin49
	Do the 5'untranslated domains of human cDNAs challenge the rules for initiation of translation (or is it vice versa)? [My Copy] Genomics, Vol. 70, No. 3. (15 December 2000), pp. 396-406. by M. Kozak posted by 1 person jmartin49
	New ways of initiating translation in eukaryotes. [My Copy] Molecular and cellular biology, Vol. 21, No. 23. (December 2001), pp. 8238-8246. by R. Schneider, V. I. Agol, R. Andino, et al.F. Bayard, D. R. Cavener, S. A. Chappell, J. J. Chen, J. L. Darlix, A. Dasgupta, O. Donzé, R. Duncan, O. Elroy-Stein, P. J. Farabaugh, W. Filipowicz, M. Gale, L. Gehrke, E. Goldman, Y. Groner, J. B. Harford, M. Hatzglou, B. He, C. U. Hellen, M. W. Hentze, J. Hershey, P. Hershey, T. Hohn, M. Holcik, C. P. Hunter, K. Igarashi, R. Jackson, R. Jagus, L. S. Jefferson, B. Joshi, R. Kaempfer, M. Katze, R. J. Kaufman, M. Kiledjian, S. R. Kimball, A. Kimchi, K. Kirkegaard, A. E. Koromilas, R. M. Krug, V. Kruys, B. J. Lamphear, S. Lemon, R. E. Lloyd, L. E. Maquat, E. Martinez-Salas, M. B. Mathews, V. P. Mauro, S. Miyamoto, I. Mohr, D. R. Morris, E. G. Moss, N. Nakashima, A. Palmenberg, N. T. Parkin, T. Pe'ery, J. Pelletier, S. Peltz, T. V. Pestova, E. V. Pilipenko, A. C. Prats, V. Racaniello, G. S. Read, R. E. Rhoads, J. D. Richter, R. Rivera-Pomar, T. Rouault, A. Sachs, P. Sarnow, G. C. Scheper, L. Schiff, D. R. Schoenberg, B. L. Semler, A. Siddiqui, T. Skern, N. Sonenberg, S. M. Tahara, A. A. Thomas, J. J. Toulmé, J. Wilusz, E. Wimmer, G. Witherell, M. Wormington posted by 1 person jmartin49
	Initiation of translation in prokaryotes and eukaryotes. [My Copy] Gene, Vol. 234, No. 2. (8 July 1999), pp. 187-208. by M. Kozak posted by 1 person jmartin49
	Signals determining translational start-site recognition in eukaryotes and their role in prediction of genetic reading frames. [My Copy] Molecular biology reports, Vol. 13, No. 2. (1988), pp. 103-115. by B. G. Louis, M. C. Ganoza posted by 1 person jmartin49
	Using feature generation and feature selection for accurate prediction of translation initiation sites. [My Copy] Genome informatics. International Conference on Genome Informatics, Vol. 13 (2002), pp. 192-200. by F. Zeng, R. H. Yap, L. Wong posted by 1 person jmartin49
	Using amino acid patterns to accurately predict translation initiation sites. [My Copy] In silico biology, Vol. 4, No. 3. (2004), pp. 255-269. by H. Liu, H. Han, J. Li, L. Wong posted by 1 person jmartin49
	Translation initiation site prediction on a genomic scale: beauty in simplicity. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 13. (1 July 2007) by Y. Saeys, T. Abeel, S. Degroeve, Y. Van de Peer posted by 1 person jmartin49
	MANTIS: a data mining methodology for effective translation initiation site prediction. [My Copy] Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Conference, Vol. 2007 (2007), pp. 6344-6348. by G. Tzanis, C. Berberidis, I. Vlahavas posted by 1 person jmartin49
	Prediction of translation initiation sites in human mRNA sequences with AUG start codon in weak Kozak context: A neural network approach. [My Copy] Biochemical and biophysical research communications, Vol. 369, No. 4. (16 May 2008), pp. 1166-1168. by S. Tikole, R. Sankararamakrishnan posted by 1 person jmartin49
	Comparison of computational methods for identifying translation initiation sites in EST data. [My Copy] BMC bioinformatics, Vol. 5 (16 February 2004) by A. Nadershahi, S. C. Fahrenkrug, L. B. Ellis posted by 1 person jmartin49
	Using database matches with for HMMGene for automated gene detection in Drosophila. [My Copy] Genome research, Vol. 10, No. 4. (April 2000), pp. 523-528. by A. Krogh posted by 1 person jmartin49
	AUGUSTUS: a web server for gene finding in eukaryotes [My Copy] Nucl. Acids Res., Vol. 32, No. suppl_2. (1 July 2004), pp. W309-312. by Mario Stanke, Rasmus Steinkamp, Stephan Waack, Burkhard Morgenstern posted by 2 people druvus jmartin49
	MetWAMer: eukaryotic translation initiation site prediction [My Copy] BMC Bioinformatics, Vol. 9 (18 September 2008), 381. by Michael E. Sparks, Volker Brendel posted by 1 person jmartin49
	Computational analysis of core promoters in the Drosophila genome [My Copy] Genome Biology, Vol. 3, No. 12. (2002), pp. research0087.1-0087.12. by Uwe Ohler, Guo C. Liao, Heinrich Niemann, Gerald Rubin posted by 3 people BergmanLab daveGerrard jmartin49
	Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training. [My Copy] Genome research (29 August 2008) by Vardges Ter-Hovhannisyan, Alexandre Lomsadze, Yury O O. Chernoff, Mark Borodovsky posted by 7 people kiekyon jmartin49 GustavoLacerda orzenil Mycology stajich bcondon
	The biology of eukaryotic promoter prediction--a review. [My Copy] Computers & chemistry, Vol. 23, No. 3-4. (15 June 1999), pp. 191-207. by A. G. Pedersen, P. Baldi, Y. Chauvin, S. Brunak posted by 3 people jmartin49 marti xiaobeizhao
	Genome-Scale Proteomics Reveals Arabidopsis thaliana Gene Models and Proteome Dynamics [My Copy] Science, Vol. 320, No. 5878. (16 May 2008), pp. 938-941. by Katja Baerenfaller, Jonas Grossmann, Monica A. Grobei, et al.Roger Hull, Matthias Hirsch-Hoffmann, Shaul Yalovsky, Philip Zimmermann, Ueli Grossniklaus, Wilhelm Gruissem, Sacha Baginsky posted by 9 people dandaman jmartin49 druvus timflutre renatomilani xwbcn megraw caseybrown jmjimenez
	Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes [My Copy] Nucl. Acids Res., Vol. 36, No. 3. (11 February 2008), pp. 861-871. by So Nakagawa, Yoshihito Niimura, Takashi Gojobori, Hiroshi Tanaka, Kin-Ichiro Miura posted by 2 people jmartin49 cabbagezs
	Computational analyses of eukaryotic promoters. [My Copy] BMC Bioinformatics, Vol. 8 Suppl 6 (2007) by M. Q. Zhang posted by 3 people jmartin49 brant guhjy
	AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site [My Copy] BMC Bioinformatics, Vol. 8 (30 August 2007), 318. by Alex V. Kochetov, Andrey Palyanov, Igor I. Titov, Dmitry Grigorovich, Akinori Sarai, Nikolay A. Kolchanov posted by 1 person jmartin49
	Translation Initiation Sites Prediction with Mixture Gaussian Models [My Copy] Algorithms in Bioinformatics (2004), pp. 338-349. by Guoliang Li, Tze-Yun Leong, Louxin Zhang posted by 2 people jmartin49 liguoliang
	The Gibbs Centroid Sampler. [My Copy] Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007) by W. A. Thompson, L. A. Newberg, S. Conlan, L. A. McCue, C. E. Lawrence posted by 5 people Dulce wowalz jmartin49 cabbagezs sconlan
	An analysis of gene-finding programs for Neurospora crassa [My Copy] Bioinformatics, Vol. 17, No. 10. (1 October 2001), pp. 901-912. by Eileen Kraemer, Jian Wang, Jinhua Guo, Samuel Hopkins, Jonathan Arnold posted by 2 people jmartin49 GustavoLacerda
	Gibbs Recursive Sampler: finding transcription factor binding sites [My Copy] Nucl. Acids Res., Vol. 31, No. 13. (1 July 2003), pp. 3580-3585. by William Thompson, Eric C. Rouchka, Charles E. Lawrence posted by 9 people Dulce wowalz Mehlhorn jmartin49 lyongu dquest daniel_quest johncumbers xiaobeizhao
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	The Universal Protein Resource (UniProt) in 2010 [My Copy] Nucl. Acids Res. (20 October 2009), gkp846. by The UniProt Consortium posted by 2 people azazello sf11
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	Phymm and PhymmBL: metagenomic phylogenetic classification with interpolated Markov models [My Copy] Nature Methods, Vol. 6, No. 9. (02 August 2009), pp. 673-676. by Arthur Brady, Steven L. Salzberg posted by 14 people CorinYeats idoerg azazello Orengo Group Journal Picks robertrentzsch dakelley skembel Thaverkamp iSEEM sharpton Journal picks jbhiatt Mycology stajich
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	A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads [My Copy] Bioinformatics, Vol. 25, No. 9. (1 May 2009), pp. 1118-1124. by Tobias Rausch, Sergey Koren, Gennady Denisov, et al.David Weese, Anne-Katrin Emde, Andreas Doring, Knut Reinert posted by 24 people orzenil humburg jfr azazello hzoltan cthachuk GustavoLacerda jasontsai n00c nuin dakelley skembel Thaverkamp reyez TRHvidsten iSEEM djkt Bioinformatics hpaces APRegier pengchy natstreet druvus darian
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	Estimating the size of the bacterial pan-genome. [My Copy] Trends in genetics : TIG, Vol. 25, No. 3. (23 March 2009), pp. 107-110. by Pascal Lapierre, J. Peter Gogarten posted by 6 people treangen azazello skembel iSEEM djkt nyyu
	Chemical synthesis of poliovirus cDNA: generation of infectious virus in the absence of natural template. [My Copy] Science (New York, N.Y.), Vol. 297, No. 5583. (9 August 2002), pp. 1016-1018. by J. Cello, A. V. Paul, E. Wimmer posted by 1 person azazello
	Genome sequence of the radioresistant bacterium Deinococcus radiodurans R1. [My Copy] Science (New York, N.Y.), Vol. 286, No. 5444. (19 November 1999), pp. 1571-1577. by O. White, J. A. Eisen, J. F. Heidelberg, et al.E. K. Hickey, J. D. Peterson, R. J. Dodson, D. H. Haft, M. L. Gwinn, W. C. Nelson, D. L. Richardson, K. S. Moffat, H. Qin, L. Jiang, W. Pamphile, M. Crosby, M. Shen, J. J. Vamathevan, P. Lam, L. McDonald, T. Utterback, C. Zalewski, K. S. Makarova, L. Aravind, M. J. Daly, K. W. Minton, R. D. Fleischmann, K. A. Ketchum, K. E. Nelson, S. Salzberg, H. O. Smith, J. C. Venter, C. M. Fraser posted by 1 person azazello
	Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thaliana. [My Copy] Genome biology, Vol. 7, No. 2. (2006) by T. Casneuf, S. De Bodt, J. Raes, S. Maere, Y. Van de Peer posted by 1 person azazello
	The evolutionary demography of duplicate genes. [My Copy] Journal of structural and functional genomics, Vol. 3, No. 1-4. (2003), pp. 35-44. by Michael Lynch, John S. Conery posted by 2 people operon azazello
	Position-associated GC asymmetry of gene duplicates. [My Copy] Journal of molecular evolution, Vol. 59, No. 3. (September 2004), pp. 372-384. by S. N. Rodin, D. V. Parkhomchuk posted by 1 person azazello
	Repositioning-dependent fate of duplicate genes. [My Copy] DNA and cell biology, Vol. 24, No. 9. (September 2005), pp. 529-542. by S. N. Rodin, D. V. Parkhomchuk, A. S. Rodin, G. P. Holmquist, A. D. Riggs posted by 1 person azazello
	Epigenetic changes and repositioning determine the evolutionary fate of duplicated genes. [My Copy] Biochemistry. Biokhimii͡a, Vol. 70, No. 5. (May 2005), pp. 559-567. by S. N. Rodin, D. V. Parkhomchuk, A. D. Riggs posted by 1 person azazello
	Population-genetic models of the fates of duplicate genes. [My Copy] Genetica, Vol. 118, No. 2-3. (July 2003), pp. 279-294. by B. Walsh posted by 1 person azazello
	The evolution of gene duplicates. [My Copy] Advances in genetics, Vol. 46 (2002), pp. 451-483. by S. P. Otto, P. Yong posted by 1 person azazello
	A scale of functional divergence for yeast duplicated genes revealed from analysis of the protein-protein interaction network. [My Copy] Genome biology, Vol. 5, No. 10. (2004) by A. Baudot, B. Jacq, C. Brun posted by 1 person azazello
	Approach of the functional evolution of duplicated genes in Saccharomyces cerevisiae using a new classification method based on protein-protein interaction data. [My Copy] Journal of structural and functional genomics, Vol. 3, No. 1-4. (2003), pp. 213-224. by C. Brun, A. Guénoche, B. Jacq posted by 1 person azazello
	Estimating the Time to the Whole-Genome Duplication and the Duration of Concerted Evolution via Gene Conversion in Yeast [My Copy] Genetics, Vol. 171, No. 1. (1 September 2005), pp. 63-69. by Ryuichi P. Sugino, Hideki Innan posted by 1 person azazello
	Genomics and gene transcription kinetics in yeast. [My Copy] Trends in genetics : TIG, Vol. 23, No. 5. (May 2007), pp. 250-257. by J. E. Pérez-Ortín, P. M. Alepuz, J. Moreno posted by 1 person azazello
	Divergence in the spatial pattern of gene expression between human duplicate genes. [My Copy] Genome research, Vol. 13, No. 7. (July 2003), pp. 1638-1645. by K. D. Makova, W. H. Li posted by 1 person azazello
	Multiple whole-genome alignments without a reference organism [My Copy] Genome Research, Vol. 19, No. 4. (28 April 2009), pp. 682-689. by Inna Dubchak, Alexander Poliakov, Andrey Kislyuk, Michael Brudno posted by 14 people fernan fstrozzi GustavoLacerda michaelbarton mlangill dakelley xwbcn Neeperando zwang nyyu djkt semrich azazello mhamada
	Germ Warfare in a Microbial Mat Community: CRISPRs Provide Insights into the Co-Evolution of Host and Viral Genomes [My Copy] PLoS ONE, Vol. 4, No. 1. (January 2009), e4169. by John F. Heidelberg, William C. Nelson, Thomas Schoenfeld, Devaki Bhaya posted by 3 people azazello trfield neils