Black Lab Publications

49. Andrey Damianov and Douglas L. Black. Autoregulation of Fox protein expression to produce dominant negative splicing factors. RNA (2009). In press.  
48. Pandya-Jones A, Black DL. Co-transcriptional splicing of constitutive and alternative exons”. RNA 15(10):1896-908. (2009).  
47. Babic I, Sharma S, Black DL. A role for polypyrimidine tract binding protein in the establishment of focal adhesions. Mol Cell Biol 29(20):5564-77. (2009)  
46. Lee JA, Tang ZZ, Black DL. An inducible change in Fox-1/A2BP1 splicing modulates the alternative splicing of downstream neuronal target exons. Genes Dev 23(19):2284-93. (2009).  
45. Tang ZZ, Zheng S, Nikolic J, Black DL. Developmental control of CaV1.2 L-type calcium channel splicing by Fox proteins. Mol Cell Bio 2009 29(17):4757-65. (2009).  
43. Chawla G, Lin CH, Han A, Shiue L, Ares M Jr, Black DL. Sam68 regulates a set of alternatively spliced exons during neurogenesis. Mol Cell Biol 29(1):201-13 (2009).
42. Black DL, Zipursky SL. To cross or not to cross: alternatively spliced forms of the Robo3 receptor regulate discrete steps in axonal midline crossing. Neuron, 58(3):297-8 (2008).
41. Xing Y, Stoilov P, Kapur K, Han A, Jiang H, Shen S, Black DL, Wong WH. MADS: a new and improved method for analysis of differential alternative splicing by exon-tiling microarrays. RNA, (8):1470-9 (2008).
40. Stoilov P, Lin CH, Damoiseaux R, Nikolic J, Black DL. A new high-throughput screening strategy identifies cardiotonic steroids as alternative splicing modulators. Proceedings of the National Academy of Sciences, USA, 105(32):11218-23 (2008).
39. Sharma S, Kohlstaedt L, Damianov A, Rio D, and Douglas L. Black. Polypyrimidine tract binding protein controls the transition from exon definition to an intron defined spliceosome. Nature Structural and Molecular Biology, 15( 2): 183-9 (2008).
38. Li Q, Lee JA, and Douglas L. Black. Neuronal regulation of alternative pre-mRNA splicing. Nature Reviews Neuroscience, 8(11): 819-31 (2007).
37. Boutz P, Stoilov P, Li Q, Lin C, Chawla G, Ostrow K, Shiue L, Manuel C. Ares and Douglas L. Black. Post-transcriptional regulatory switchin polypyrimidine tract-binding proteins reprograms alternative splicing in developing neurons. Genes and Development, 21(13):1636-52 (2007).
36. Lee J, Xing Y, Nguyen D, Xie J, Lee C. and Douglas L. Black. Depolarization and CaM Kinase IV Modulate NMDA Receptor Splicing through Two Essential RNA Elements. PLoS Biology, 5(2):e40 (2007).
35. Boutz P, Chawla G, Stoilov P, and Douglas L. Black. MicroRNAs regulate the expression of the alternative splicing factor nPTB during muscle development. Genes and Development, 21(1):71-84 (2007).
34. Sharma S, and Douglas L. Black. Maps, Codes, and Sequence Elements: Can We Predict the Protein Output from an Alternatively Spliced Locus? Neuron, 52(4):574-576 (2006)
33. Douglas L. Black and Brenton R. Graveley. Splicing bioinformatics to biology. Genome Biology, 7(5):317 (2006).
32. Auweter, Sigrid, Fasan R, Luc Reymond, Jason Underwood, Douglas L Black, StefanPitsch  and Frédéric H-T Allain . Molecular basis of RNA recognition by the human alternative splicing factor Fox-1. The EMBO Journal, 25(1):163-73 (2006)
31. Xie J., Jan C., Stoilov P., Park J. and Black, D.L. A consensus CaMK IV-responsive RNA sequence mediates regulation of alternative exons in neurons. RNA, 11(12):1825-1834 (2005)
30.
Underwood J., Boutz P., Dougherty, J.D., Stoilov P. and Black, D.L. Homologues of the C. Elegans Fox-1 Protein are neuronal splicing regulators in mammals.
Mol and Cell Biol, 25(22):10005-16 (2005).
29. Oberstrass, Florian C., Sigrid D. Auweter , Michèle Erat, Yann Hargous, Anke Henning, PhilippWenter, Luc Reymond, Batoul Amir-Ahmady, Stefan Pitsch, Douglas L. Black, Frédéric H.-T.Allain . Structure of PTB bound to RNA: specific binding and implications for splicing regulation. Science, 309(5743):2054-7 (2005).
28.
Sharma S., Falick A.M., and Black D.L. Polypyrimidine Tract Binding Protein Blocks the 5' Splice Site-Dependent Assembly of U2AF and the Prespliceosomal E Complex.
 Molecular Cell, 19(4):485-96 (2005).
27.
Amir-Ahmady B., Boutz P., Markovtsov V., Phillips M.L., and Black D.L. Exon Repression by Polypyrimidine Tract Binding Protein.
RNA, 11(5):699-716 (2005).
26.
Black, Douglas L., A simple answer for a splicing conundrum.
 Proceedings of the National Academy of Sciences, USA , 104(14):4927-8 (2005).
25. Hall, Megan P., Sui Huang and Douglas L. Black, Differentiation-induced Colocalization of the KH-type Splicing Regulatory Protein with Polypyrimidine Tract Binding Protein and the c-src Pre-mRNA. Molecular Biology of the Cell, 15:774-786 (2004)
24. Xie, Jiuyong, Ji-Ann Lee, Tracy L. Kress, Kimberly L. Mowry and Douglas L. Black. Protein Kinase A phosphorylation modulates transport of the polypyrimidine tract-binding protein. Proceedings of the National Academy of Sciences, USA, 100(15): 8776-8781 (2003)
23. Rooke, Nanette, Vadim Markovtsov, Esra Cagavi, Doulgas L. Black. Roles for SR proteins and hnRNP A1 in the regulation of c-src exon N1. Mol and Cell Biol, 23(6):1874-1884 (2003).
22. Black, Douglas L., Mechanisms of Alternative Pre-Messenger RNA Splicing.

Annual Review of Biochemistry, Vol 72. (2003)
21. Black, Douglas L. and Paula J. Grabowski. Alternative pre-mRNA splicing and neuronal function. Chapter in: Progress in Molecular and Subcellular Biology, Vol. 31(P.Jeantuer, ed.).

Springer-Verlag Berlin Heidelberg, (2003)
20. Grabowski, Paula J. and Douglas L. Black. Alternative RNA splicing in the nervous system. Progress in Neurobiology, 65(3):289-308 (2001).
19. Xie, Jiuyong and Douglas L. Black. A CaMK IV-responsive RNA element mediates depolarization-induced alternative splicing of potassium channels. Nature, 410:936-939 (2001).
18. Black, Douglas L. Protein diversity from alternative splicing: a challenge for bioinformatics and post-genome biology. Cell, 103(3):367-370 (2000).
17. Markovtsov, Vadim, Julia M. Nikolic, Joseph A. Goldman, Christoph W. Turck, Min-Yuan Chou, and Douglas L. Black. Cooperative assembly of an hnRNP complex induced by a tissue-specific homolog of polypyrimidine-tract binding protein. Mol and Cell Biol, 20(20):7463-7479 (2000).
16. Chou, Min-Yuan, Jason G. Underwood, Julia Nikolic, Martin H. T. Luu and Douglas L. Black. Multisite binding and release of polypyrimidine tract binding protein during the regulation of c-src neuralspecific splicing. Molecular Cell, 5:949-957 (2000).
15. Modafferi, Edward F., and Douglas L. Black Combinatorial control of a neuron-specific exon. RNA, 5: 687-706 (1999).
14. Ring, Huijun Z., Vida Vameghi-Meyers, Julia M. Nikolic, Hosung Min, Douglas L. Black, and Uta Francke. Mapping of the KHSRP gene to a region of conserved synteny on human chromosome 19p13.3 and mouse chromosome 17. Genomics, 56: 350-352 (1999).
13. Ring, Huijun Z., Vida Vameghi-Meyers, Hosung Min, Julia M. Nikolic, Douglas L. Black, and Uta Francke. The mouse Fubp gene maps near the distal end of chromosome 3. Genomics, 56: 357-358 (1999).
12. Chou, Min-Yuan, Nanette Rooke, Christoph W. Turck, Douglas L. Black. HnRNP H is a component of a splicing enhancer complex that activates a c-src alternative exon in neuronal cells. Mol Cell Biol, 19(1): 69-77 (1999).
11. Black, Douglas L. Splicing in the inner ear: a familiar tune, but what are the instruments? Neuron, 20(2): 165-168 (1998).
10. Wei, Nan, Claudia Q. Lin, Edward F. Modafferi, William A. Gomes, and Douglas L. Black. A unique intronic splicing enhancer controls the inclusion of the agrin Y exon. RNA, 3: 1275-1288 (1997).
9. Modafferi, Edward F., and Douglas L. Black. A complex intronic splicing enhancer from the c-src pre-mRNA activates inclusion of a heterologous exon. Mol Cell Biol, 17(11): 6537-6545 (1997).
8. Chan, Raymond C., and Douglas L. Black. The polypyrimidine tract binding protein binds upstream of neural cell-specific c-src exon N1 to repress the splicing of the intron downstream. Mol Cell Biol, 17(8): 4667-4676 (1997).
7. Min, Hosung, Christoph W. Turck, Julia M. Nikolic, and Douglas L. Black. A new regulatory protein, KSRP, mediates exon inclusion through an intronic splicing enhancer. Genes and Development, 11:1023-1036 (1997).
6. Black, Douglas L., Raymond C. Chan, Hosung Min, Jiwa Wang, and Leslie Bell. The electrophoretic mobility shift assay for RNA binding proteins. Chapter in "RNA-Protein Interactions: A Practical Approach." Oxford University Press, Oxford, UK (1997).
5. Black, Douglas L. Finding splice sites within a wilderness of RNA. RNA, 1:763-771 (1995).
4. Min, Hosung, Raymond C. Chan, and Douglas L. Black. The generally expressed hnRNP F is involved in a neural-specific pre-mRNA splicing event. Genes and Development, 9:2659-2671 (1995).
3. Chan, Raymond C., and Douglas L. Black. Conserved intron elements repress splicing of a neuron-specific c-src exon in vitro. Mol Cell Biol, 15:6377-6385 (1995).
2. Black, Douglas L. Activation of c-src neuron-specific splicing by an unusual RNA element in vivo and in vitro. Cell, 69:795-807 (1992).
1. Black, Douglas L. Does steric interference between splice sites block the splicing of a short c-src neuron-specific exon in non-neuronal cells? Genes and Development, 5:389-402 (1991).

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