Genome Majority Vote Improves Gene Predictions
暂无分享,去创建一个
Judith D. Cohn | Michael E. Wall | Sindhu Raghavan | John Dunbar | M. Wall | S. Raghavan | J. Dunbar | J. Cohn | Sindhu Raghavan
[1] Michael E Wall,et al. Consistency of gene starts among Burkholderia genomes , 2011, BMC Genomics.
[2] Chuong B. Do,et al. CONTRAST: a discriminative, phylogeny-free approach to multiple informant de novo gene prediction , 2007, Genome Biology.
[3] M. Brent,et al. Leveraging the mouse genome for gene prediction in human: from whole-genome shotgun reads to a global synteny map. , 2003, Genome research.
[4] Michael R. Brent,et al. Using Multiple Alignments to Improve Gene Prediction , 2005, RECOMB.
[5] Simon Kasif,et al. A comparative genomic method for computational identification of prokaryotic translation initiation sites. , 2002, Nucleic acids research.
[6] Natalia N. Ivanova,et al. GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes , 2010, Nature Methods.
[7] Monica Riley,et al. Escherichia coli K-12: a cooperatively developed annotation snapshot—2005 , 2006, Nucleic acids research.
[8] R. Myers,et al. Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data , 2005, Nucleic acids research.
[9] Charles J. Vaske,et al. Gene prediction and verification in a compact genome with numerous small introns. , 2004, Genome research.
[10] Rick L. Stevens,et al. The RAST Server: Rapid Annotations using Subsystems Technology , 2008, BMC Genomics.
[11] W. Bruno. Modeling residue usage in aligned protein sequences via maximum likelihood. , 1996, Molecular biology and evolution.
[12] Frank Allgöwer,et al. Identification of models of heterogeneous cell populations from population snapshot data , 2011, BMC Bioinformatics.
[13] P. Bork,et al. Large gene overlaps in prokaryotic genomes: result of functional constraints or mispredictions? , 2008, BMC Genomics.
[14] R. Guigó,et al. Comparative gene prediction in human and mouse. , 2003, Genome research.
[15] V. Kunin,et al. Genomic Analysis of “Elusimicrobium minutum,” the First Cultivated Representative of the Phylum “Elusimicrobia” (Formerly Termite Group 1) , 2009, Applied and Environmental Microbiology.
[16] Ian Korf,et al. Integrating genomic homology into gene structure prediction , 2001, ISMB.
[17] J. Gogarten,et al. Using comparative genome analysis to identify problems in annotated microbial genomes. , 2010, Microbiology.
[18] M. Brent,et al. Comparison of mouse and human genomes followed by experimental verification yields an estimated 1,019 additional genes , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[19] C. Médigue,et al. MaGe: a microbial genome annotation system supported by synteny results , 2006, Nucleic acids research.
[20] E. Myers,et al. Basic local alignment search tool. , 1990, Journal of molecular biology.
[21] M. Brent. Steady progress and recent breakthroughs in the accuracy of automated genome annotation , 2008, Nature Reviews Genetics.
[22] A. Halpern,et al. Weighted neighbor joining: a likelihood-based approach to distance-based phylogeny reconstruction. , 2000, Molecular biology and evolution.
[23] Miriam L. Land,et al. Trace: Tennessee Research and Creative Exchange Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification Recommended Citation Prodigal: Prokaryotic Gene Recognition and Translation Initiation Site Identification , 2022 .
[24] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[25] L. Pachter,et al. SLAM: cross-species gene finding and alignment with a generalized pair hidden Markov model. , 2003, Genome research.
[26] Kenneth E. Rudd,et al. EcoGene: a genome sequence database for Escherichia coli K-12 , 2000, Nucleic Acids Res..
[27] Jacqueline A. Servin,et al. Evidence for a gram-positive, eubacterial root of the tree of life. , 2007, Molecular biology and evolution.
[28] Mark Borodovsky,et al. GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses , 2005, Nucleic Acids Res..
[29] Steven Salzberg,et al. Identifying bacterial genes and endosymbiont DNA with Glimmer , 2007, Bioinform..