GENCODE: producing a reference annotation for ENCODE
暂无分享,去创建一个
J. Harrow | A. Frankish | J. Chrast | A. Reymond | R. Guigó | T. Hubbard | F. Denoeud | Julien Lagarde | D. Swarbreck | J. Gilbert | C. Ucla | S. Antonarakis | R. Storey | Chao-Kung Chen | C. Rossier | Jacqueline Chrast
[1] S. Karlin,et al. Prediction of complete gene structures in human genomic DNA. , 1997, Journal of molecular biology.
[2] Richard Mott,et al. EST_GENOME: a program to align spliced DNA sequences to unspliced genomic DNA , 1997, Comput. Appl. Biosci..
[3] S. Eddy,et al. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. , 1997, Nucleic acids research.
[4] G. Benson,et al. Tandem repeats finder: a program to analyze DNA sequences. , 1999, Nucleic acids research.
[5] R. Guigó,et al. GeneID in Drosophila. , 2000, Genome research.
[6] I. Longden,et al. EMBOSS: the European Molecular Biology Open Software Suite. , 2000, Trends in genetics : TIG.
[7] V. Solovyev,et al. Ab initio gene finding in Drosophila genomic DNA. , 2000, Genome research.
[8] E L Sonnhammer,et al. Integrated graphical analysis of protein sequence features predicted from sequence composition , 2001, Proteins.
[9] J. Mattick. Non‐coding RNAs: the architects of eukaryotic complexity , 2001, EMBO reports.
[10] A. Reymond,et al. From PREDs and open reading frames to cDNA isolation: revisiting the human chromosome 21 transcription map. , 2001, Genomics.
[11] R. Guigó,et al. SGP-1: prediction and validation of homologous genes based on sequence alignments. , 2001, Genome research.
[12] D R Bentley,et al. The DNA sequence and comparative analysis of human chromosome 20 , 2004, Nature.
[13] S. Brenner,et al. Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[14] C. V. Jongeneel,et al. Nineteen additional unpredicted transcripts from human chromosome 21. , 2002, Genomics.
[15] T. Hubbard,et al. Computational detection and location of transcription start sites in mammalian genomic DNA. , 2002, Genome research.
[16] M. Kozak,et al. Emerging links between initiation of translation and human diseases , 2002, Mammalian Genome.
[17] M. Brent,et al. The effects of evolutionary distance on TWINSCAN, an algorithm for pair-wise comparative gene prediction. , 2003, Cold Spring Harbor symposia on quantitative biology.
[18] J. Kawai,et al. Cap analysis gene expression for high-throughput analysis of transcriptional starting point and identification of promoter usage , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[19] 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.
[20] D. Bartel. MicroRNAs Genomics, Biogenesis, Mechanism, and Function , 2004, Cell.
[21] R. Durbin,et al. GeneWise and Genomewise. , 2004, Genome research.
[22] E. Lander,et al. Finishing the euchromatic sequence of the human genome , 2004 .
[23] Paul T. Groth,et al. The ENCODE (ENCyclopedia Of DNA Elements) Project , 2004, Science.
[24] S. Searle,et al. The Ensembl analysis pipeline. , 2004, Genome research.
[25] J. Bonfield,et al. Finishing the euchromatic sequence of the human genome , 2004, Nature.
[26] Vivek Iyer,et al. The otter annotation system. , 2004, Genome research.
[27] Eduardo Eyras,et al. ESTGenes: alternative splicing from ESTs in Ensembl. , 2004, Genome research.
[28] Simon C. Potter,et al. An overview of Ensembl. , 2004, Genome research.
[29] David Haussler,et al. Computational identification of evolutionarily conserved exons , 2004, RECOMB.
[30] International Human Genome Sequencing Consortium. Finishing the euchromatic sequence of the human genome , 2004 .
[31] E. Liu,et al. Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation , 2005, Nature Methods.
[32] Tatiana A. Tatusova,et al. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins , 2004, Nucleic Acids Res..
[33] C. Will,et al. Splicing of a rare class of introns by the U12-dependent spliceosome , 2005, Biological chemistry.
[34] Sanghyuk Lee,et al. ECgene: genome annotation for alternative splicing , 2004, Nucleic Acids Res..
[35] Philipp Kapranov,et al. Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays. , 2005, Genome research.
[36] Christopher B. Burge,et al. Recognition of Unknown Conserved Alternatively Spliced Exons , 2005, PLoS Comput. Biol..
[37] E. Birney,et al. EGASP: the human ENCODE Genome Annotation Assessment Project , 2006, Genome Biology.
[38] Tatiana Tatusova,et al. NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins , 2004, Nucleic Acids Res..
[39] E. Birney,et al. Pfam: the protein families database , 2013, Nucleic Acids Res..