ArticleGenome biology2003
Annotation and analysis of 10,000 expressed sequence tags from developing mouse eye and adult retina.
Article in Genome biology, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.
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Who cites it
19 citing papers in PubMed, 1 synthesis or guideline pooled it, 44 citations in OpenAlex.
- The Retinome - defining a reference transcriptome of the adult mammalian retina/retinal pigment epithelium.BMC genomics · 2004Pooled it
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- Vision from next generation sequencing: multi-dimensional genome-wide analysis for producing gene regulatory networks underlying retinal development, aging and disease.Progress in retinal and eye research · 2015Review
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- Genetic networks in the mouse retina: growth associated protein 43 and phosphatase tensin homolog network.Molecular vision · 2011Article
- Comparison of 454-ESTs from Huperzia serrata and Phlegmariurus carinatus reveals putative genes involved in lycopodium alkaloid biosynthesis and developmental regulation.BMC plant biology · 2010Article
- Identification of immune genes of the Agamaki clam (Sinonovacula constricta) by sequencing and bioinformatic analysis of ESTs.Marine biotechnology (New York, N.Y.) · 2010Article
- Individual retinal progenitor cells display extensive heterogeneity of gene expression.PloS one · 2008Article
- Using a seed-network to query multiple large-scale gene expression datasets from the developing retina in order to identify and prioritize experimental targets.Bioinformatics and biology insights · 2008Article
- A pig multi-tissue normalised cDNA library: large-scale sequencing, cluster analysis and 9K micro-array resource generation.BMC genomics · 2008Article
- Regulation of VEGF mRNA expression and protein secretion by TGF-beta2 in human retinal pigment epithelial cells.Experimental eye research · 2007Article
- Analysis of a set of Australian northern brown bandicoot expressed sequence tags with comparison to the genome sequence of the South American grey short tailed opossum.BMC genomics · 2007Article
- Mapping of transcription start sites of human retina expressed genes.BMC genomics · 2007Article
- Generation and analysis of large-scale expressed sequence tags (ESTs) from a full-length enriched cDNA library of porcine backfat tissue.BMC genomics · 2006Article
- Zinc-finger domains of the transcriptional repressor KLF15 bind multiple sites in rhodopsin and IRBP promoters including the CRS-1 and G-rich repressor elements.BMC molecular biology · 2005Article
- Article
- Identification of genes involved in immune response, microsatellite, and SNP markers from expressed sequence tags generated from hemocytes of freshwater pearl mussel (Hyriopsis cumingii).Marine biotechnology (New York, N.Y.)Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundAs a biomarker of cellular activities, the transcriptome of a specific tissue or cell type during development and disease is of great biomedical interest. We have generated and analyzed 10,000 expressed sequence tags (ESTs) from three mouse eye tissue cDNA libraries: embryonic day 15.5 (M15E) eye, postnatal day 2 (M2PN) eye and adult retina (MRA).
resultsAnnotation of 8,633 non-mitochondrial and non-ribosomal high-quality ESTs revealed that 57% of the sequences represent known genes and 43% are unknown or novel ESTs, with M15E having the highest percentage of novel ESTs. Of these, 2,361 ESTs correspond to 747 unique genes and the remaining 6,272 are represented only once. Phototransduction genes are preferentially identified in MRA, whereas transcripts for cell structure and regulatory proteins are highly expressed in the developing eye. Map locations of human orthologs of known genes uncovered a high density of ocular genes on chromosome 17, and identified 277 genes in the critical regions of 37 retinal disease loci. In silico expression profiling identified 210 genes and/or ESTs over-expressed in the eye; of these, more than 26 are known to have vital retinal function. Comparisons between libraries provided a list of temporally regulated genes and/or ESTs. A few of these were validated by qRT-PCR analysis.
conclusionsOur studies present a large number of potentially interesting genes for biological investigation, and the annotated EST set provides a useful resource for microarray and functional genomic studies.
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