RANBP2 and CLTC are involved in ALK rearrangements in inflammatory myofibroblastic tumors
ABSTRACT Inflammatory myofibroblastic tumors (IMTs) are rare soft tissue tumors occurring primarily in children and young adults. ALK gene rearrangements have been identified in this neoplasm, with fusion of the ALK gene at 2p23 to a number of different partner genes. Metaphase cytogenetic analyses of these tumors have been relatively few, however, and may help to identify additional variant partners. We report on an IMT from a 2-year-old boy with a karyotype of 45,XY,der(2)inv(2)(p23q12)del(2)(p11.1p11.2),-22. FISH showed ALK-RANBP2 fusion in this tumor. The breakpoint was cloned and the fusion was confirmed, making this the third reported case of IMT with ALK-RANBP2 fusion. In addition, we identified the ALK fusion partner in a previously reported IMT with t(2;17)(p23;q23) as CLTC, a gene reported to be involved in four other IMTs, and showed that the breakpoint involved a novel ALK-CLTC fusion. FISH evaluation of nine other IMTs identified CLTC as the fusion partner in one additional case, but RANBP2 was not involved in the remaining eight IMTs, suggesting that the variant partners involved in ALK rearrangements in IMTs are diverse.
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Conference Paper: The value evolution graph and its use in memory reference analysis[Show abstract] [Hide abstract]
ABSTRACT: We introduce a framework for the analysis of memory reference sets addressed by induction variables without closed forms. This framework relies on a new data structure, the value evolution graph (VEG), which models the global flow of values taken by induction variable with and without closed forms. We describe the application of our framework to array data-flow analysis, privatization, and dependence analysis. This results in the automatic parallelization of loops that contain arrays addressed by induction variables without closed forms. We implemented this framework in the Polaris research compiler. We present experimental results on a set of codes from the PERFECT, SPEC, and NCSA benchmark suites.Parallel Architecture and Compilation Techniques, 2004. PACT 2004. Proceedings. 13th International Conference on; 01/2004
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ABSTRACT: The regulator of G-protein signaling (RGS)-containing RhoGEFs, including p115RhoGEF, PDZ-RhoGEF, and LARG, represent a novel family of guanine nucleotide exchange factors for RhoA that are regulated by the Galpha(12/13) family of heterotrimeric G proteins. Experimental evidence indicates that the complex architecture of these RhoGEFs provides the structural basis for novel regulatory mechanisms mediated by protein-protein interactions. These include the direct association of their RGS domain with GTP-bound forms of Galpha(12/13) and the binding of the PDZ domain present in PDZ-RhoGEF and LARG to plexins, which are receptors for semaphorins. The carboxyl-terminal region of these GEFs also exerts regulatory properties, including the ability to form dimers, which is inhibitory to their in vivo GEF activity and, in the case of PDZ-RhoGEF, to associate with PAK4, a downstream target of Cdc42. This carboxyl-terminal region also acts as the target for tyrosine kinases, which have a positive effect on the long-term activity of these GEFs. This article describes the experimental strategies that have been utilized to begin unraveling the molecular mechanisms regulating the functional activity of RGS-containing RhoGEFs.Methods in Enzymology 02/2004; 390:259-85. DOI:10.1016/S0076-6879(04)90017-1 · 2.19 Impact Factor