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      Toxicogenomics profiling of bone marrow from rats treated with topotecan in combination with oxaliplatin: a mechanistic strategy to inform combination toxicity

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          Abstract

          Combinations of anticancer agents may have synergistic anti-tumor effects, but enhanced hematological toxicity often limit their clinical use. We examined whether “microarray profiles” could be used to compare early molecular responses following a single dose of agents administered individually with that of the agents administered in a combination. We compared the mRNA responses within bone marrow of Sprague-Dawley rats after a single 30 min treatment with topotecan at 4.7 mg/kg or oxaliplatin at 15 mg/kg alone to that of sequentially administered combination therapy or vehicle control for 1, 6, and 24 h. We also examined the histopathology of the bone marrow following all treatments. Drug-related histopathological lesions were limited to bone marrow hypocellularity for animals dosed with either agent alone or in combination. Lesions had an earlier onset and higher incidence for animals given topotecan alone or in combination with oxaliplatin. Severity increased from mild to moderate when topotecan was administered prior to oxaliplatin compared with administering oxaliplatin first. Notably, six patterns of co-expressed genes were detected at the 1 h time point that indicate regulatory expression of genes that are dependent on the order of the administration. These results suggest alterations in histone biology, chromatin remodeling, DNA repair, bone regeneration, and respiratory and oxidative phosphorylation are among the prominent pathways modulated in bone marrow from animals treated with an oxaliplatin/topotecan combination. These data also demonstrate the potential for early mRNA patterns derived from target organs of toxicity to inform toxicological risk and molecular mechanisms for agents given in combination.

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          Most cited references44

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          WikiPathways: building research communities on biological pathways

          Here, we describe the development of WikiPathways (http://www.wikipathways.org), a public wiki for pathway curation, since it was first published in 2008. New features are discussed, as well as developments in the community of contributors. New features include a zoomable pathway viewer, support for pathway ontology annotations, the ability to mark pathways as private for a limited time and the availability of stable hyperlinks to pathways and the elements therein. WikiPathways content is freely available in a variety of formats such as the BioPAX standard, and the content is increasingly adopted by external databases and tools, including Wikipedia. A recent development is the use of WikiPathways as a staging ground for centrally curated databases such as Reactome. WikiPathways is seeing steady growth in the number of users, page views and edits for each pathway. To assess whether the community curation experiment can be considered successful, here we analyze the relation between use and contribution, which gives results in line with other wiki projects. The novel use of pathway pages as supplementary material to publications, as well as the addition of tailored content for research domains, is expected to stimulate growth further.
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            The role of tenascin-C in tissue injury and tumorigenesis

            The extracellular matrix molecule tenascin-C is highly expressed during embryonic development, tissue repair and in pathological situations such as chronic inflammation and cancer. Tenascin-C interacts with several other extracellular matrix molecules and cell-surface receptors, thus affecting tissue architecture, tissue resilience and cell responses. Tenascin-C modulates cell migration, proliferation and cellular signaling through induction of pro-inflammatory cytokines and oncogenic signaling molecules amongst other mechanisms. Given the causal role of inflammation in cancer progression, common mechanisms might be controlled by tenascin-C during both events. Drugs targeting the expression or function of tenascin-C or the tenascin-C protein itself are currently being developed and some drugs have already reached advanced clinical trials. This generates hope that increased knowledge about tenascin-C will further improve management of diseases with high tenascin-C expression such as chronic inflammation, heart failure, artheriosclerosis and cancer.
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              Presenting and exploring biological pathways with PathVisio

              Background Biological pathways are a useful abstraction of biological concepts, and software tools to deal with pathway diagrams can help biological research. PathVisio is a new visualization tool for biological pathways that mimics the popular GenMAPP tool with a completely new Java implementation that allows better integration with other open source projects. The GenMAPP MAPP file format is replaced by GPML, a new XML file format that provides seamless exchange of graphical pathway information among multiple programs. Results PathVisio can be combined with other bioinformatics tools to open up three possible uses: visual compilation of biological knowledge, interpretation of high-throughput expression datasets, and computational augmentation of pathways with interaction information. PathVisio is open source software and available at . Conclusion PathVisio is a graphical editor for biological pathways, with flexibility and ease of use as primary goals.
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                Author and article information

                Contributors
                Journal
                Front Genet
                Front Genet
                Front. Genet.
                Frontiers in Genetics
                Frontiers Media S.A.
                1664-8021
                12 February 2015
                2015
                : 6
                : 14
                Affiliations
                [1] 1Toxicology and Pharmacology Branch, Division of Cancer Treatment and Diagnosis, National Cancer Institute Bethesda, MD, USA
                [2] 2Kelly Government Solutions, Research Triangle Park NC, USA
                [3] 3Microarray and Genome Informatics Group, National Institute of Environmental Health Sciences, Research Triangle Park NC, USA
                [4] 4Toxicology and Pathology Services, Southern Research Institute Birmingham, AL, USA
                [5] 5Biostatistics Branch, Division of Intramural Research, National Institute of Environmental Health Sciences, Research Triangle Park NC, USA
                Author notes

                Edited by: Richard Nass, Indiana University School of Medicine, USA

                Reviewed by: Garry Wong, University of Eastern Finland, Finland; Douglas Mark Ruden, Wayne State University, USA

                *Correspondence: Myrtle Davis, Toxicology and Toxicogenomics, 9609 Medical Center Drive, Bethesda, MD 20892, USA e-mail: myrtledavis@ 123456mail.nih.gov ;
                Pierre R. Bushel, Bioinformatics and Toxicogenomics, 111 T. W. Alexander Drive, PO Box 12233, Research Triangle Park, NC 27709, USA e-mail: bushel@ 123456niehs.nih.gov

                This article was submitted to Toxicogenomics, a section of the journal Frontiers in Genetics.

                Article
                10.3389/fgene.2015.00014
                4325931
                25729387
                19f6aa57-8b03-4339-b444-42a026ee6d8f
                Copyright © 2015 Davis, Li, Knight, Eldridge, Daniels and Bushel.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 16 October 2014
                : 12 January 2015
                Page count
                Figures: 7, Tables: 4, Equations: 0, References: 54, Pages: 19, Words: 12159
                Categories
                Genetics
                Original Research Article

                Genetics
                toxicogenomics,bone marrow,topotecan,combination,oxaliplatin,enhanced toxicity,epig
                Genetics
                toxicogenomics, bone marrow, topotecan, combination, oxaliplatin, enhanced toxicity, epig

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