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Finding signals that regulate alternative splicing in the post-genomic era
Andrea N Ladd, Thomas A Cooper
Genome Biol. 2002; 3(11): reviews0008.1–reviews0008.16. Published online 2002 October 23. doi: 10.1186/gb-2002-3-11-reviews0008
PMCID:
PMC244920
Abstract Full Text PDF–160K

Is Cited by the Following 34 Articles in this Archive:

Mining Functional Elements in Messenger RNAs: Overview, Challenges, and Perspectives
Firoz Ahmed, Vagner A. Benedito, Patrick Xuechun Zhao
Front Plant Sci. 2011; 2: 84. Published online 2011 November 30. doi: 10.3389/fpls.2011.00084
PMCID:
PMC3355573
Abstract Full Text PDF–1.6M
Characterization of Alternative Spliceoforms and the RNA Splicing Machinery in Pancreatic Cancer
Patricia E. Carrigan, Jonathan L. Bingham, Subha Srinvasan, Teresa A. Brentnall, Laurence J. Miller
Pancreas. Author manuscript; available in PMC 2012 March 1.
Published in final edited form as: Pancreas. 2011 March; 40(2): 281–288. doi: 10.1097/MPA.0b013e31820128d2
PMCID:
PMC3038180
Abstract Full Text PDF–403K
The naked truth: Sphynx and Devon Rex cat breed mutations in KRT71
Barbara Gandolfi, Catherine A. Outerbridge, Leslie G. Beresford, Jeffrey A. Myers, Monica Pimentel, Hasan Alhaddad, Jennifer C. Grahn, Robert A. Grahn, Leslie A. Lyons
Mamm Genome. 2010 October; 21(9-10): 509–515. Published online 2010 October 16. doi: 10.1007/s00335-010-9290-6
PMCID:
PMC2974189
Abstract Full Text PDF–280K Supplementary Material
Alternative splicing attenuates transgenic expression directed by the apolipoprotein E promoter-enhancer based expression vector pLIV11
Dongmei Cheng, Philip S. MacArthur, Shunxing Rong, John S. Parks, Gregory S. Shelness
J Lipid Res. 2010 April; 51(4): 849–855. doi: 10.1194/jlr.D002709
PMCID:
PMC2842150
Abstract Full Text Supplementary Material
Comparative Component Analysis of Exons with Different Splicing Frequencies
Shiqin Song, Qianli Huang, Jiaming Guo, Jesse Li-Ling, Xueping Chen, Fei Ma
PLoS ONE. 2009; 4(4): e5387. Published online 2009 April 30. doi: 10.1371/journal.pone.0005387
PMCID:
PMC2671145
Abstract Full Text PDF–317K Supplementary Material
A Global View of Cancer-Specific Transcript Variants by Subtractive Transcriptome-Wide Analysis
Chunjiang He, Fang Zhou, Zhixiang Zuo, Hanhua Cheng, Rongjia Zhou
PLoS ONE. 2009; 4(3): e4732. Published online 2009 March 6. doi: 10.1371/journal.pone.0004732
PMCID:
PMC2648985
Abstract Full Text PDF–858K
Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays
Katerina Kechris, Yee Hwa Yang, Ru-Fang Yeh
BMC Genomics. 2008; 9: 551. Published online 2008 November 20. doi: 10.1186/1471-2164-9-551
PMCID:
PMC2631580
Abstract Full Text PDF–653K Supplementary Material
Ab initio identification of functionally interacting pairs of cis-regulatory elements
Brad A. Friedman, Michael B. Stadler, Noam Shomron, Ye Ding, Christopher B. Burge
Genome Res. 2008 October; 18(10): 1643–1651. doi: 10.1101/gr.080085.108
PMCID:
PMC2556269
Abstract Full Text PDF–633K
Identification of motifs that function in the splicing of non-canonical introns
Jill I Murray, Rodger B Voelker, Kristy L Henscheid, M Bryan Warf, J Andrew Berglund
Genome Biol. 2008; 9(6): R97. Published online 2008 June 12. doi: 10.1186/gb-2008-9-6-r97
PMCID:
PMC2481429
Abstract Full Text PDF–1.2M Supplementary Material
Splicing regulation: From a parts list of regulatory elements to an integrated splicing code
Zefeng Wang, Christopher B. Burge
RNA. 2008 May; 14(5): 802–813. doi: 10.1261/rna.876308
PMCID:
PMC2327353
Abstract Full Text PDF–339K
Comparative analysis of sequence features involved in the recognition of tandem splice sites
Ralf Bortfeldt, Stefanie Schindler, Karol Szafranski, Stefan Schuster, Dirk Holste
BMC Genomics. 2008; 9: 202. Published online 2008 April 30. doi: 10.1186/1471-2164-9-202
PMCID:
PMC2423196
Abstract Full Text PDF–1.7M Supplementary Material
Mining small RNA structure elements in untranslated regions of human and mouse mRNAs using structure-based alignment
Mugdha Khaladkar, Jianghui Liu, Dongrong Wen, Jason TL Wang, Bin Tian
BMC Genomics. 2008; 9: 189. Published online 2008 April 25. doi: 10.1186/1471-2164-9-189
PMCID:
PMC2413145
Abstract Full Text PDF–315K Supplementary Material
Strategies for Identifying RNA Splicing Regulatory Motifs and Predicting Alternative Splicing Events
Dirk Holste, Uwe Ohler
PLoS Comput Biol. 2008 January; 4(1): e21. Published online 2008 January 25. doi: 10.1371/journal.pcbi.0040021
PMCID:
PMC2217580
Full Text PDF–649K Supplementary Material
An Intronic Signal for Alternative Splicing in the Human Genome
Necat Havlioglu, Jun Wang, Kazuo Fushimi, Maria D. Vibranovski, Zhengyan Kan, Warren Gish, Alexei Fedorov, Manyuan Long, Jane Y. Wu
PLoS ONE. 2007; 2(11): e1246. Published online 2007 November 28. doi: 10.1371/journal.pone.0001246
PMCID:
PMC2082412
Abstract Full Text PDF–464K Supplementary Material
Features generated for computational splice-site prediction correspond to functional elements
Rezarta Islamaj Dogan, Lise Getoor, W John Wilbur, Stephen M Mount
BMC Bioinformatics. 2007; 8: 410. Published online 2007 October 24. doi: 10.1186/1471-2105-8-410
PMCID:
PMC2241647
Abstract Full Text PDF–1.2M Supplementary Material
Dual-specificity splice sites function alternatively as 5′ and 3′ splice sites
Chaolin Zhang, Michelle L. Hastings, Adrian R. Krainer, Michael Q. Zhang
Proc Natl Acad Sci U S A. 2007 September 18; 104(38): 15028–15033. Published online 2007 September 11. doi: 10.1073/pnas.0703773104
PMCID:
PMC1986607
Abstract Full Text PDF–965K Supplementary Material
Regulation of Retention of FosB Intron 4 by PTB
Victor Marinescu, Patricia A. Loomis, Svetlana Ehmann, Mitchell Beales, Judith A. Potashkin
PLoS ONE. 2007; 2(9): e828. Published online 2007 September 5. doi: 10.1371/journal.pone.0000828
PMCID:
PMC1952174
Abstract Full Text PDF–307K
Functional coordination of alternative splicing in the mammalian central nervous system
Matthew Fagnani, Yoseph Barash, Joanna Y Ip, Christine Misquitta, Qun Pan, Arneet L Saltzman, Ofer Shai, Leo Lee, Aviad Rozenhek, Naveed Mohammad, Sandrine Willaime-Morawek, Tomas Babak, Wen Zhang, Timothy R Hughes, Derek van der Kooy, Brendan J Frey, Benjamin J Blencowe
Genome Biol. 2007; 8(6): R108. Published online 2007 June 12. doi: 10.1186/gb-2007-8-6-r108
PMCID:
PMC2394768
Abstract Full Text PDF–1.7M Supplementary Material
Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data
Hui Yu, Feng Wang, Kang Tu, Lu Xie, Yuan-Yuan Li, Yi-Xue Li
BMC Bioinformatics. 2007; 8: 194. Published online 2007 June 11. doi: 10.1186/1471-2105-8-194
PMCID:
PMC1913542
Abstract Full Text PDF–875K Supplementary Material
Discovery and Analysis of Evolutionarily Conserved Intronic Splicing Regulatory Elements
Gene W Yeo, Eric L. Van Nostrand, Tiffany Y Liang
PLoS Genet. 2007 May; 3(5): e85. Prepublished online 2007 April 13. Published online 2007 May 25. doi: 10.1371/journal.pgen.0030085
Correction in:
PLoS Genet. 2007 July; 3(7): e122.
PMCID:
PMC1877881
Abstract Full Text PDF–1.8M Supplementary Material Correction
Expression of full-length p53 and its isoform Δp53 in breast carcinomas in relation to mutation status and clinical parameters
Lars O Baumbusch, Simen Myhre, Anita Langerød, Anna Bergamaschi, Stephanie B Geisler, Per E Lønning, Wolfgang Deppert, Irene Dornreiter, Anne-Lise Børresen-Dale
Mol Cancer. 2006; 5: 47. Published online 2006 October 20. doi: 10.1186/1476-4598-5-47
PMCID:
PMC1636663
Abstract Full Text PDF–526K Supplementary Material
PAPILLOMAVIRUS GENOME STRUCTURE, EXPRESSION, AND POST-TRANSCRIPTIONAL REGULATION
Zhi-Ming Zheng, Carl C. Baker
Front Biosci. Author manuscript; available in PMC 2006 May 30.
Published in final edited form as: Front Biosci. 2006 September 1; 11: 2286–2302.
PMCID:
PMC1472295
Abstract Full Text PDF–1.4M
Organization and post-transcriptional processing of focal adhesion kinase gene
Jean-Marc Corsi, Evelyne Rouer, Jean-Antoine Girault, Hervé Enslen
BMC Genomics. 2006; 7: 198. Published online 2006 August 4. doi: 10.1186/1471-2164-7-198
PMCID:
PMC1570463
Abstract Full Text PDF–811K Supplementary Material
Phylogenetically widespread alternative splicing at unusual GYNGYN donors
Michael Hiller, Klaus Huse, Karol Szafranski, Philip Rosenstiel, Stefan Schreiber, Rolf Backofen, Matthias Platzer
Genome Biol. 2006; 7(7): R65. Published online 2006 July 25. doi: 10.1186/gb-2006-7-7-r65
PMCID:
PMC1779574
Abstract Full Text PDF–615K Supplementary Material
Unusual Intron Conservation near Tissue-Regulated Exons Found by Splicing Microarrays
Charles W Sugnet, Karpagam Srinivasan, Tyson A Clark, Georgeann O'Brien, Melissa S Cline, Hui Wang, Alan Williams, David Kulp, John E Blume, David Haussler, Manuel Ares, Jr.
PLoS Comput Biol. 2006 January; 2(1): e4. Prepublished online 2005 December 14. Published online 2006 January 20. doi: 10.1371/journal.pcbi.0020004
PMCID:
PMC1331982
Abstract Full Text PDF–664K Supplementary Material
Alternative splicing regulation at tandem 3′ splice sites
Martin Akerman, Yael Mandel-Gutfreund
Nucleic Acids Res. 2006; 34(1): 23–31. Published online 2006 January 3. doi: 10.1093/nar/gkj408
PMCID:
PMC1325015
Abstract Full Text PDF–340K Supplementary Material
Splicing regulators: targets and drugs
Gene Wei-Ming Yeo
Genome Biol. 2005; 6(12): 240. Published online 2005 December 1. doi: 10.1186/gb-2005-6-12-240
PMCID:
PMC1414078
Abstract Full Text PDF–113K
Competition of PTB with TIA proteins for binding to a U-rich cis-element determines tissue-specific splicing of the myosin phosphatase targeting subunit 1
SUPRIYA SHUKLA, FABIENNE DEL GATTO-KONCZAK, RICHARD BREATHNACH, STEVEN A. FISHER
RNA. 2005 November; 11(11): 1725–1736. doi: 10.1261/rna.7176605
PMCID:
PMC1370859
Abstract Full Text PDF–428K
XenDB: Full length cDNA prediction and cross species mapping in Xenopus laevis
Alexander Sczyrba, Michael Beckstette, Ali H Brivanlou, Robert Giegerich, Curtis R Altmann
BMC Genomics. 2005; 6: 123. Published online 2005 September 14. doi: 10.1186/1471-2164-6-123
PMCID:
PMC1261260
Abstract Full Text PDF–1.4M Supplementary Material
Dichotomous splicing signals in exon flanks
Xiang H-F. Zhang, Christina S. Leslie, Lawrence A. Chasin
Genome Res. 2005 June; 15(6): 768–779. doi: 10.1101/gr.3217705
PMCID:
PMC1142467
Abstract Full Text PDF–885K
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