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A tissue-specific landscape of sense/antisense transcription in the mouse intestine

By Ulrich C Klostermeier, Matthias Barann, Michael Wittig, Robert Häsler, Andre Franke, Olga Gavrilova, Benjamin Kreck, Christian Sina, Markus B Schilhabel, Stefan Schreiber and Philip Rosenstiel
Topics: Research Article
Publisher: BioMed Central
OAI identifier: oai:pubmedcentral.nih.gov:3125268
Provided by: PubMed Central

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  1. (2007). al: Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature
  2. (2004). al: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Genome Res
  3. (2004). At the crossroads of inflammation and cancer. Cell
  4. (2008). Blencowe BJ: Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet
  5. (2011). Composite Transcriptome Assembly of RNA-seq data in a Sheep Model for Delayed Bone Healing. BMC Genomics
  6. (2005). CS: A large-scale analysis of mRNA polyadenylation of human and mouse genes. Nucleic Acids Res
  7. (2002). et al: Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature
  8. (2001). et al: Functional annotation of a full-length mouse cDNA collection. Nature
  9. (2003). G: Widespread occurrence of antisense transcription in the human genome. Nat Biotechnol
  10. (2008). Gene expression profiling by massively parallel sequencing. Genome Res
  11. (1000). Genome Project Data Processing Subgroup: The Sequence Alignment/Map format and SAMtools. Bioinformatics
  12. (2006). Gossler A: Identification of mouse genes with highly specific expression patterns in differentiated intestinal epithelium. Gastroenterology
  13. (2008). Grimmond SM: Stem cell transcriptome profiling via massive-scale mRNA sequencing. Nat Methods
  14. (2010). GW: Deep mRNA sequencing for in vivo functional analysis of cardiac transcriptional regulators: application to Galphaq. Circ Res
  15. (2009). H: Transcriptome of embryonic and neonatal mouse cortex by highthroughput RNA sequencing. Proc Natl Acad Sci
  16. (2010). Hughes TR: Most “dark matter” transcripts are associated with known genes. PLoS Biol
  17. (2010). In-depth transcriptome analysis reveals novel TARs and prevalent antisense transcription in human cell lines. PLoS ONE
  18. (2010). JK: Understanding mechanisms underlying human gene expression variation with RNA sequencing.
  19. (1996). JL: The polyadenylation factor CstF-64 regulates alternative processing of IgM heavy chain pre-mRNA during B cell differentiation. Cell
  20. (2008). Kinzler KW: The antisense transcriptomes of human cells. Science
  21. (2008). Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods
  22. (2002). Novel genes and functional relationships in the adult mouse gastrointestinal tract identified by microarray analysis. Gastroenterology
  23. (2010). Regev A: Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs.
  24. (2009). RH: Massively parallel sequencing of the polyadenylated transcriptome of C. elegans. Genome Res
  25. (2009). RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet
  26. (2009). S: Genetic control of global gene expression levels in the intestinal mucosa: a human twin study. Physiol Genomics
  27. (2009). Soldatov A: Transcriptome analysis by strandspecific sequencing of complementary DNA.
  28. (1999). Systematic determination of genetic network architecture. Nat Genet
  29. (2006). T-K: A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies. Nat Biotech
  30. (2009). Tang : mRNA-Seq wholetranscriptome analysis of a single cell. Nat Methods
  31. (2005). The transcriptional landscape of the mammalian genome. Science
  32. (2008). The transcriptional landscape of the yeast genome defined by RNA sequencing. Science
  33. (2010). Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol
  34. (2010). WJ: The UCSC Genome Browser database: update 2010. Nucleic Acids Res
  35. (2009). Wong WH: Statistical inferences for isoform expression in RNASeq. Bioinformatics
  36. (2010). X: Dynamic regulation of alternative splicing and chromatin structure in Drosophila gonads revealed by RNA-seq. Cell Res
  37. (2008). Yaspo M-L: A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science
  38. (2010). Zhang Y: Power of Deep Sequencing and Agilent Microarray for Gene Expression Profiling Study. Mol Biotechnol