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GENCODE: producing a reference annotation for ENCODE

GENCODE: producing a reference annotation for ENCODE

http://www.wikidata.org/entity/Q21184138

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project A user's guide to the encyclopedia of DNA elements (ENCODE)Nuclear and mitochondrial tRNA-lookalikes in the human genome The Long Non-Coding RNAs: A New (P)layer in the "Dark Matter"Retrotransposition of gene transcripts leads to structural variation in mammalian genomes The GENCODE pseudogene resource Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates EGASP: the human ENCODE Genome Annotation Assessment Project The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA Regulation of pancreatic microRNA-7 expression Evidence for transcript networks composed of chimeric RNAs in human cells A general definition and nomenclature for alternative splicing events From mouse to human: evolutionary genomics analysis of human orthologs of essential genes Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution Widespread purifying selection on RNA structure in mammals A high-resolution map of human evolutionary constraint using 29 mammals Integrated analysis of dysregulated ncRNA and mRNA expression profiles in humans exposed to carbon nanotubes GENCODE: the reference human genome annotation for The ENCODE Project The importance of identifying alternative splicing in vertebrate genome annotation Tracking and coordinating an international curation effort for the CCDS Project Ensembl 2011 Mapping copy number variation by population-scale genome sequencing ENCODE whole-genome data in the UCSC genome browser (2011 update)Network of Cancer Genes (NCG 3.0): integration and analysis of genetic and network properties of cancer genes Variation analysis and gene annotation of eight MHC haplotypes: the MHC Haplotype Project The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes N-Myc regulates a widespread euchromatic program in the human genome partially independent of its role as a classical transcription factor Ensembl 2007 FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin Structured RNAs in the ENCODE selected regions of the human genome Prominent use of distal 5' transcription start sites and discovery of a large number of additional exons in ENCODE regions The DART classification of unannotated transcription within the ENCODE regions: associating transcription with known and novel loci The landscape of histone modifications across 1% of the human genome in five human cell lines Elevated paternal glucocorticoid exposure alters the small noncoding RNA profile in sperm and modifies anxiety and depressive phenotypes in the offspring.Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments AnnoTrack - a tracking system for genome annotation Integrating Epigenomics into the Understanding of Biomedical Insight Multiple evidence strands suggest that there may be as few as 19,000 human protein-coding genes Ensembl 2012 OpenMS: a flexible open-source software platform for mass spectrometry data analysis

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GENCODE: producing a reference annotation for ENCODE

http://www.wikidata.org/entity/Q21184138

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2006 nî lūn-bûn

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2006 թուականին հրատարակուած գիտական յօդուած

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Colette Rossier

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James G R Gilbert

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Roy Storey

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GeneWise and Genomewise

EGASP: the human ENCODE Genome Annotation Assessment Project

The DNA sequence and comparative analysis of human chromosome 20

Finishing the euchromatic sequence of the human genome

Non-coding RNAs: the architects of eukaryotic complexity

Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

ECgene: genome annotation for alternative splicing

NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

The otter annotation system

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7 Suppl 1

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Roderic Guigó i Serra

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