ArticleNature methods2008
Isoform discovery by targeted cloning, 'deep-well' pooling and parallel sequencing.
Article in Nature methods, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
21 citing papers in PubMed.
- Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms.Molecular cell · 2025Article
- A massively parallel barcoded sequencing pipeline enables generation of the first ORFeome and interactome map for rice.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- ORF Capture-Seq as a versatile method for targeted identification of full-length isoforms.Nature communications · 2020Article
- Network Medicine in Pathobiology.The American journal of pathology · 2019Review
- Article
- Article
- A massively parallel pipeline to clone DNA variants and examine molecular phenotypes of human disease mutations.PLoS genetics · 2014Article
- Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism.Nature communications · 2014Article
- Transcriptome analysis of crucian carp (Carassius auratus), an important aquaculture and hypoxia-tolerant species.PloS one · 2013Article
- Article
- A public genome-scale lentiviral expression library of human ORFs.Nature methods · 2011Article
- Inference of isoforms from short sequence reads.Journal of computational biology : a journal of computational molecular cell biology · 2011Article
- Incorporation of non-natural nucleotides into template-switching oligonucleotides reduces background and improves cDNA synthesis from very small RNA samples.BMC genomics · 2010Article
- WebPrInSeS: automated full-length clone sequence identification and verification using high-throughput sequencing data.Nucleic acids research · 2010Article
- Article
- Cost-effective sequencing of full-length cDNA clones powered by a de novo-reference hybrid assembly.PloS one · 2010Article
- Towards reliable isoform quantification using RNA-SEQ data.BMC bioinformatics · 2010Article
- Is sequencing enlightenment ending the dark age of the transcriptome?Nature methods · 2009Article
- Transcriptome sequencing of the Microarray Quality Control (MAQC) RNA reference samples using next generation sequencing.BMC genomics · 2009Article
- Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
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Authors and funding
16 authors.
Funding
Abstract
Describing the 'ORFeome' of an organism, including all major isoforms, is essential for a system-level understanding of any species; however, conventional cloning and sequencing approaches are prohibitively costly and labor-intensive. We describe a potentially genome-wide methodology for efficiently capturing new coding isoforms using reverse transcriptase (RT)-PCR recombinational cloning, 'deep-well' pooling and a next-generation sequencing platform. This ORFeome discovery pipeline will be applicable to any eukaryotic species with a sequenced genome.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.