ArticleNucleic acids research2005
A microarray configuration to quantify expression levels and relative abundance of splice variants.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed.
- Microarray-based identification of individual HERV loci expression: application to biomarker discovery in prostate cancer.Journal of visualized experiments : JoVE · 2013Article
- Genome-wide Profiling of RNA splicing in prostate tumor from RNA-seq data using virtual microarrays.Journal of clinical bioinformatics · 2012Article
- Article
- Verifying expressed transcript variants by detecting and assembling stretches of consecutive exons.Nucleic acids research · 2010Article
- Genome-wide analysis of novel splice variants induced by topoisomerase I poisoning shows preferential occurrence in genes encoding splicing factors.Cancer research · 2010Article
- Development of a novel splice array platform and its application in the identification of alternative splice variants in lung cancer.BMC genomics · 2010Article
- Custom human endogenous retroviruses dedicated microarray identifies self-induced HERV-W family elements reactivated in testicular cancer upon methylation control.Nucleic acids research · 2010Article
- High resolution analysis of the human transcriptome: detection of extensive alternative splicing independent of transcriptional activity.BMC genetics · 2009Article
- Heterogeneous nuclear ribonucleoprotein G regulates splice site selection by binding to CC(A/C)-rich regions in pre-mRNA.The Journal of biological chemistry · 2009Article
- Genomics, transcriptional profiling, and heart failure.Journal of the American College of Cardiology · 2009Review
- Estimating accuracy of RNA-Seq and microarrays with proteomics.BMC genomics · 2009Article
- Expression of 24,426 human alternative splicing events and predicted cis regulation in 48 tissues and cell lines.Nature genetics · 2008Article
- Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays.BMC genomics · 2008Article
- What would you do if you could sequence everything?Nature biotechnology · 2008Article
- Alternative splicing of the G protein-coupled receptor superfamily in human airway smooth muscle diversifies the complement of receptors.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays.Genome biology · 2008Article
- Alternative ion channel splicing in mesial temporal lobe epilepsy and Alzheimer's disease.Genome biology · 2007Article
- Profiling alternatively spliced mRNA isoforms for prostate cancer classification.BMC bioinformatics · 2006Article
- Recent developments in primer design for DNA polymorphism and mRNA profiling in higher plants.Plant methods · 2006Article
- Unusual intron conservation near tissue-regulated exons found by splicing microarrays.PLoS computational biology · 2006Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Over the past decade, alternative RNA splicing has raised a great interest appearing to be of high importance in the generation of expression diversity. This regulatory process plays a critical role in the normal development and its impact on the initiation and development of human disorders as well as on the pharmacological properties of drugs is increasingly being recognized. Only few studies describe specific alternative splicing expression profiling. Microarray strategies have been conceived to address alternative splicing events but with very few experimental data related to their abilities to provide true quantification values. We have developed a specific microarray configuration relying on a few, well optimized probes per splice event. Basically, five probes of 24mer are used to fully characterize a splice event. These probes are of two types, exon probes and junction probes, and are either specific to a splice event or not. The performances of such a 'splice array' were validated on synthetic model systems and on complex biological materials. The results indicate that DNA chips based on this design combining exon and junction derived probes enable the detection and, absolute and relative quantification of splice variants. In addition, this strategy is compatible with all the microarrays that use oligonucleotide probes.
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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.