Home LiteratureArticle Details
PMID: 15239822 Published · ppublish English Journal Article Review

Analysis of alternative splicing with microarrays: successes and challenges.

Genome biology ·Vol. 5 ·No. 7 ·2004-00-00 ·Pages 231

Lee C, Roy M

Abstract

Recently, DNA microarrays have emerged as potentially powerful tools for analyzing alternative splicing. We briefly review the latest results in this field and highlight the current challenges that they have revealed.

MeSH Terms
Alternative Splicing/genetics Animals Humans Oligonucleotide Array Sequence Analysis/methods Sequence Analysis, DNA/methods
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Lee Christopher
Molecular Biology Institute, Center for Genomics and Proteomics, Department of Chemistry and Biochemistry, University of California, Los Angeles, CA 90095-1570, USA. [email protected]
Roy Meenakshi
References (27)
27 references, click to expand
  1. Genome-wide detection of alternative splicing in expressed sequences of human genes.
    Nucleic Acids Res. 2001 Jul 1;29(13):2850-9 PMID: 11433032
  2. Frequent alternative splicing of human genes.
    Genome Res. 1999 Dec;9(12):1288-93 PMID: 10613851
  3. A genomic view of alternative splicing.
    Nat Genet. 2002 Jan;30(1):13-9 PMID: 11753382
  4. Profiling alternative splicing on fiber-optic arrays.
    Nat Biotechnol. 2002 Apr;20(4):353-8 PMID: 11923840
  5. Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays.
    Science. 2002 May 3;296(5569):907-10 PMID: 11988574
  6. Large-scale transcriptional activity in chromosomes 21 and 22.
    Science. 2002 May 3;296(5569):916-9 PMID: 11988577
  7. Splicing graphs and EST assembly problem.
    Bioinformatics. 2002;18 Suppl 1:S181-8 PMID: 12169546
  8. The use and analysis of microarray data.
    Nat Rev Drug Discov. 2002 Dec;1(12):951-60 PMID: 12461517
  9. Evidence for the widespread coupling of alternative splicing and nonsense-mediated mRNA decay in humans.
    Proc Natl Acad Sci U S A. 2003 Jan 7;100(1):189-92 PMID: 12502788
  10. Increase of functional diversity by alternative splicing.
    Trends Genet. 2003 Mar;19(3):124-8 PMID: 12615003
  11. Alternative splicing in the human, mouse and rat genomes is associated with an increased frequency of exon creation and/or loss.
    Nat Genet. 2003 Jun;34(2):177-80 PMID: 12730695
  12. Gene structure-based splice variant deconvolution using a microarray platform.
    Bioinformatics. 2003;19 Suppl 1:i315-22 PMID: 12855476
  13. Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing.
    Genome Biol. 2003;4(10):R66 PMID: 14519201
  14. Genome-wide survey of human alternative pre-mRNA splicing with exon junction microarrays.
    Science. 2003 Dec 19;302(5653):2141-4 PMID: 14684825
  15. Stochastic yet biased expression of multiple Dscam splice variants by individual cells.
    Nat Genet. 2004 Mar;36(3):240-6 PMID: 14758360
  16. The multiassembly problem: reconstructing multiple transcript isoforms from EST fragment mixtures.
    Genome Res. 2004 Mar;14(3):426-41 PMID: 14962984
  17. Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.
    Genome Res. 2004 Mar;14(3):331-42 PMID: 14993201
  18. Assessing the impact of alternative splicing on domain interactions in the human proteome.
    J Proteome Res. 2004 Jan-Feb;3(1):76-83 PMID: 14998166
  19. High density synthetic oligonucleotide arrays.
    Nat Genet. 1999 Jan;21(1 Suppl):20-4 PMID: 9915496
  20. Alternative splicing and programmed cell death.
    Proc Soc Exp Biol Med. 1999 Feb;220(2):64-72 PMID: 9933500
  21. ISIS, the intron information system, reveals the high frequency of alternative splicing in the human genome.
    Nat Genet. 2000 Apr;24(4):340-1 PMID: 10742092
  22. EST comparison indicates 38% of human mRNAs contain possible alternative splice forms.
    FEBS Lett. 2000 May 26;474(1):83-6 PMID: 10828456
  23. Drosophila Dscam is an axon guidance receptor exhibiting extraordinary molecular diversity.
    Cell. 2000 Jun 9;101(6):671-84 PMID: 10892653
  24. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection.
    Proc Natl Acad Sci U S A. 2001 Jan 2;98(1):31-6 PMID: 11134512
  25. Initial sequencing and analysis of the human genome.
    Nature. 2001 Feb 15;409(6822):860-921 PMID: 11237011
  26. Gene structure prediction and alternative splicing analysis using genomically aligned ESTs.
    Genome Res. 2001 May;11(5):889-900 PMID: 11337482
  27. Predicting splice variant from DNA chip expression data.
    Genome Res. 2001 Jul;11(7):1237-45 PMID: 11435406
Article Info
Journal
Genome biology
Abbr.
Genome Biol
ISSN
1474-760X
DOI
10.1186/gb-2004-5-7-231
Email
[email protected]
Published
2004-00-00
Epub
2004-00-21
Pages
231
Language
English
Region
England
NLM ID
100960660
PMCID
PMC463277
Subset
IM
External Links
PubMed source DOI: 10.1186/gb-2004-5-7-231 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2