ArticleGenome biology2004
A comprehensive transcript index of the human genome generated using microarrays and computational approaches.
Article in Genome biology, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers, 1 of them a synthesis that pooled it.
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Who cites it
43 citing papers in PubMed, 1 synthesis or guideline pooled it, 99 citations in OpenAlex.
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- Analysis of tiling array expression studies with flexible designs in Bioconductor (waveTiling).BMC bioinformatics · 2012Article
- A hidden Markov support vector machine framework incorporating profile geometry learning for identifying microbial RNA in tiling array data.Bioinformatics (Oxford, England) · 2010Article
- Most "dark matter" transcripts are associated with known genes.PLoS biology · 2010Article
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- Age-related molecular genetic changes of murine bone marrow mesenchymal stem cells.BMC genomics · 2010Article
- An integrated mass-spectrometry pipeline identifies novel protein coding-regions in the human genome.PloS one · 2010Article
- High-resolution transcription atlas of the mitotic cell cycle in budding yeast.Genome biology · 2010Article
- Exploring the transcriptional landscape of plant circadian rhythms using genome tiling arrays.Genome biology · 2009Article
- Non-coding RNAs revealed during identification of genes involved in chicken immune responses.Immunogenetics · 2009Article
- Conservation of core gene expression in vertebrate tissues.Journal of biology · 2009Article
- Novel low abundance and transient RNAs in yeast revealed by tiling microarrays and ultra high-throughput sequencing are not conserved across closely related yeast species.PLoS genetics · 2008Article
- Noncoding RNA in development.Mammalian genome : official journal of the International Mammalian Genome Society · 2008Review
- Using ChIP-chip technology to reveal common principles of transcriptional repression in normal and cancer cells.Genome research · 2008Article
- Systems biology and its potential role in radiobiology.Radiation and environmental biophysics · 2008Review
- Differential screening of phage-ab libraries by oligonucleotide microarray technology.PloS one · 2008Article
Corrections and comments
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Authors and funding
23 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundComputational and microarray-based experimental approaches were used to generate a comprehensive transcript index for the human genome. Oligonucleotide probes designed from approximately 50,000 known and predicted transcript sequences from the human genome were used to survey transcription from a diverse set of 60 tissues and cell lines using ink-jet microarrays. Further, expression activity over at least six conditions was more generally assessed using genomic tiling arrays consisting of probes tiled through a repeat-masked version of the genomic sequence making up chromosomes 20 and 22.
resultsThe combination of microarray data with extensive genome annotations resulted in a set of 28,456 experimentally supported transcripts. This set of high-confidence transcripts represents the first experimentally driven annotation of the human genome. In addition, the results from genomic tiling suggest that a large amount of transcription exists outside of annotated regions of the genome and serves as an example of how this activity could be measured on a genome-wide scale.
conclusionsThese data represent one of the most comprehensive assessments of transcriptional activity in the human genome and provide an atlas of human gene expression over a unique set of gene predictions. Before the annotation of the human genome is considered complete, however, the previously unannotated transcriptional activity throughout the genome must be fully characterized.
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