jmartin49's library 75 articles Export

	Probabilistic methods of identifying genes in prokaryotic genomes: connections to the HMM theory. [My Copy] Briefings in bioinformatics, Vol. 5, No. 2. (June 2004), pp. 118-130. by R. K. Azad, M. Borodovsky posted to gp_gene_mark gp_programs gp_prokaryotic by jmartin49 on 2009-01-31 05:32:05 as along with 1 person wenhan
	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 to gp_prokaryotic by jmartin49 on 2009-01-31 05:30:59 as
	Combining diverse evidence for gene recognition in completely sequenced bacterial genomes. [My Copy] Nucleic Acids Res, Vol. 26, No. 12. (15 June 1998), pp. 2941-2947. by D. Frishman, A. Mironov, H. W. Mewes, M. Gelfand posted to gp_prokaryotic by jmartin49 on 2009-01-31 05:07:03 as along with 2 people and 1 group azazello wenhan MBLAB
	EasyGene - a prokaryotic gene finder that ranks ORFs by statistical significance [My Copy] BMC Bioinformatics, Vol. 4, No. 1. (2003), 21. by Thomas Larsen, Anders Krogh posted to gp_prokaryotic by jmartin49 on 2009-01-31 03:26:01 as along with 3 people and 1 group druvus azazello wenhan MBLAB
	A novel method for accurate operon predictions in all sequenced prokaryotes [My Copy] Nucleic Acids Research, Vol. 33, No. 3. (2005), pp. 880-892. by Morgan N. Price, Katherine H. Huang, Eric J. Alm, Adam P. Arkin posted to gp_prokaryotic by jmartin49 on 2009-01-30 03:09:21 as along with 2 people bluto msuarezdiez
	Large-scale prokaryotic gene prediction and comparison to genome annotation [My Copy] Bioinformatics, Vol. 21, No. 24. (15 December 2005), pp. 4322-4329. by Pernille Nielsen, Anders Krogh posted to gp_prokaryotic by jmartin49 on 2009-01-30 02:51:58 as along with 1 person druvus
	Computational Gene Prediction Using Multiple Sources of Evidence [My Copy] Genome Research (2004), pp. 142-148. by Jonathan E. Allen, Mihaela Pertea, Steven L. Salzberg posted to gp_prokaryotic by jmartin49 on 2009-01-30 02:39:55 as
	Improving gene annotation using peptide mass spectrometry. [My Copy] Genome research, Vol. 17, No. 2. (1 February 2007), pp. 231-239. by S. Tanner, Z. Shen, J. Ng, et al.L. Florea, R. Guigó, S. P. Briggs, V. Bafna posted to proteogenomics by jmartin49 on 2009-01-26 21:26:54 as along with 4 people and 1 group dandaman brant wenhan nedwards EisenLab
	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 to proteogenomics by jmartin49 on 2009-01-26 21:26:02 as along with 8 people dandaman druvus timflutre renatomilani xwbcn megraw caseybrown jmjimenez
	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 to proteogenomics by jmartin49 on 2009-01-26 21:23:57 as along with 5 people natstreet dandaman brianb nedwards TRHvidsten
	Prediction of gene structure1 [My Copy] Journal of Molecular Biology*, Vol. 226, No. 1. (July 1992), pp. 141-157. by R. Guigo posted to gp_programs by jmartin49 on 2009-01-22 15:49:50 as
	Evaluation of gene structure prediction programs. [My Copy] Genomics, Vol. 34, No. 3. (15 June 1996), pp. 353-367. by M. Burset, R. Guigó posted to gp_comparison_euk by jmartin49 on 2009-01-22 15:37:24 as along with 4 people and 2 groups rshe sonjadaniela indigoviolet wenhan EisenLab MBLAB
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-19 21:13:25 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-19 20:38:38 as
	Neural network prediction of translation initiation sites in eukaryotes: perspectives for EST and genome analysis [My Copy] In Proceedings of the 5th International Conference on Intelligent Systems for Molecular Biology, AAAI Press, Menlo Park (1997) by A. Pedersen, H. Nielsen posted to gp_improving_starts_euk by jmartin49 on 2009-01-16 19:09:39 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-16 17:23:38 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-16 17:20:11 as along with 1 person barmak7282
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-16 17:16:54 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 15:27:53 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 15:24:34 as
	Initiation of translation in prokaryotes and eukaryotes. [My Copy] Gene, Vol. 234, No. 2. (8 July 1999), pp. 187-208. by M. Kozak posted to gp_improving_starts_euk by jmartin49 on 2009-01-15 15:22:50 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 15:09:58 as along with 1 person cabbagezs
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 15:07:56 as along with 1 person liguoliang
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:58:03 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:51:22 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:48:32 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:44:47 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:42:23 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:39:25 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:33:10 as
	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 to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:28:31 as
	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 to gp_integrating_homology by jmartin49 on 2009-01-15 14:24:36 as along with 3 people mdimon alexl nedwards
	MetWAMer: eukaryotic translation initiation site prediction [My Copy] BMC Bioinformatics, Vol. 9 (18 September 2008), 381. by Michael E. Sparks, Volker Brendel posted to gp_improving_starts_euk by jmartin49 on 2009-01-15 14:21:12 as
	GeneID in Drosophila. [My Copy] Genome research, Vol. 10, No. 4. (1 April 2000), pp. 511-515. by G. Parra, E. Blanco, R. Guigó posted to gp_programs by jmartin49 on 2009-01-14 21:22:54 as along with 3 people and 1 group rshe indigoviolet wenhan EisenLab
	GeneWise and Genomewise. [My Copy] Genome research, Vol. 14, No. 5. (1 May 2004), pp. 988-995. by Ewan Birney, Michele Clamp, Richard Durbin posted to gp_integrating_homology by jmartin49 on 2009-01-14 21:21:19 as along with 7 people and 2 groups rshe druvus indigoviolet azazello alexl wenhan Stew EisenLab MBLAB
	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 to gp_programs by jmartin49 on 2009-01-14 21:19:34 as along with 3 people and 1 group indigoviolet GustavoLacerda alexl EisenLab
	An Assessment of Gene Prediction Accuracy in Large DNA Sequences [My Copy] Genome Research, Vol. 10, No. 10. (1 October 2000), pp. 1631-1642. by Roderic GuigÃ³, Pankaj Agarwal, Josep F. Abril, MoisÃ©s Burset, James W. Fickett posted to gp_comparison_euk by jmartin49 on 2009-01-14 21:18:58 as along with 3 people and 1 group ajbattle indigoviolet wenhan EisenLab
	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 to gp_programs by jmartin49 on 2009-01-14 21:18:02 as along with 1 person and 1 group 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 to gp_programs by jmartin49 on 2009-01-14 21:14:49 as along with 1 person and 1 group indigoviolet EisenLab
	Computational prediction of eukaryotic protein-coding genes. [My Copy] Nature reviews. Genetics, Vol. 3, No. 9. (September 2002), pp. 698-709. by Michael Q. Zhang posted to gp_comparison_euk by jmartin49 on 2009-01-14 21:13:01 as along with 5 people and 3 groups rshe indigoviolet dchughes GustavoLacerda wenhan EisenLab G4ID Genetics-of-Gambling
	An evaluation of contemporary hidden Markov model genefinders with a predicted exon taxonomy. [My Copy] Nucleic acids research, Vol. 35, No. 1. (January 2007), pp. 317-324. by Keith Knapp, Yi-Ping Phoebe P. Chen posted to gp_comparison_euk by jmartin49 on 2009-01-14 21:11:44 as along with 5 people and 2 groups cory_ko azazello indigoviolet wenhan GustavoLacerda ronbun_2009au EisenLab
	The conserved exon method for gene finding. [My Copy] Proc Int Conf Intell Syst Mol Biol, Vol. 8 (2000), pp. 3-12. by V. Bafna, D. H. Huson posted to gp_integrating_homology by jmartin49 on 2009-01-14 21:09:45 as along with 2 people and 2 groups indigoviolet wenhan EisenLab MBLAB
	JIGSAW: integration of multiple sources of evidence for gene prediction. [My Copy] Bioinformatics (Oxford, England), Vol. 21, No. 18. (15 September 2005), pp. 3596-3603. by Jonathan E. Allen, Steven L. Salzberg posted to gp_integrating_homology by jmartin49 on 2009-01-14 21:08:42 as along with 6 people and 1 group rshe GustavoLacerda azazello indigoviolet stajich wenhan 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 to gp_programs by jmartin49 on 2009-01-14 21:05:53 as along with 8 people and 3 groups operon thegoose2 tharris druvus indigoviolet stajich GustavoLacerda dmc C. elegans / WormBase EisenLab Durbin group
	Using multiple alignments to improve gene prediction. [My Copy] J Comput Biol, Vol. 13, No. 2. (March 2006), pp. 379-393. by S. S. Gross, M. R. Brent posted to gp_integrating_homology by jmartin49 on 2009-01-14 21:04:26 as along with 3 people and 1 group druvus indigoviolet wenhan EisenLab
	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 to gp_integrating_homology by jmartin49 on 2009-01-14 21:02:39 as along with 6 people and 2 groups gjuggler GustavoLacerda indigoviolet redelings stajich azazello EisenLab MBLAB
	Comparative gene prediction in human and mouse. [My Copy] Genome research, Vol. 13, No. 1. (1 January 2003), pp. 108-117. by Genís Parra, Pankaj Agarwal, Josep F. Abril, Thomas Wiehe, James W. Fickett, Roderic Guigó posted to gp_integrating_homology by jmartin49 on 2009-01-14 21:00:03 as along with 5 people and 2 groups rshe ajbattle indigoviolet azazello wenhan EisenLab MBLAB
	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 to gp_comparison_euk by jmartin49 on 2009-01-14 20:58:01 as along with 3 people and 1 group svozil indigoviolet GustavoLacerda EisenLab
	Identification of Genes in Human Genomic DNA [My Copy] (March 1997) by Christopher Burge posted to gp_programs by jmartin49 on 2009-01-14 20:48:34 as
	GENMARK: Parallel gene recognition for both DNA strands [My Copy] Computers & Chemistry, Vol. 17, No. 2. (1993), pp. 123-133. by Mark Borodovsky, James Mcininch posted to gp_gene_mark by jmartin49 on 2009-01-14 20:44:53 as

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jmartin49's library 75 articles Export

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