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28 results on '"Gommans, Willemijn M."'

11. Controlling miRNA regulation in disease

Author

Gommans, Willemijn M., Berezikov, Eugene, Fan, Jian-Bing, Stem Cell Aging Leukemia and Lymphoma (SALL), and Restoring Organ Function by Means of Regenerative Medicine (REGENERATE)

Subjects
Regulation of gene expression, Genetics, microRNA expression regulation, Messenger RNA, microRNA regulation in disease, microRNA, RNA, microRNA biogenesis, Biology, Non-coding RNA, Cell biology, RNA silencing, Gene silencing, microRNA expression in disease, Gene
Abstract

Our understanding of the importance of noncoding RNA molecules is steadily growing. One such important class of RNA molecules are microRNAs (miRNAs). These tiny RNAs fulfill important functions in cellular behavior by influencing the protein output levels of a high variety of genes through the regulation of target messenger RNAs. Moreover, miRNAs have been implicated in a wide range of diseases. In pathological conditions, the miRNA expression levels can be altered due to changes in the transcriptional or posttranscriptional regulation of miRNA expression. On the other side, mRNA molecules might be able to escape the regulation by miRNAs. In this review, we give an overview on how miRNA biogenesis can be altered in disease as well as how mRNAs can avoid the regulation by miRNAs. The interplay between these two processes defines the final protein output in a cell, and thus the normal or pathological cellular phenotype.

Published
2012

12. Sample preparation for small RNA massive parallel sequencing

Author

Gommans, Willemijn M., Berezikov, Eugene, Deplancke, Bart, Gheldof, Nele, Stem Cell Aging Leukemia and Lymphoma (SALL), and Restoring Organ Function by Means of Regenerative Medicine (REGENERATE)

Subjects
Genetics, Small RNA, Library construction, Massive parallel sequencing, Deep sequencing, Profiling, RNA, Biology, Solexa, Illumina, microRNA, Transfer RNA, Genomic library, Illumina dye sequencing, miRNA, Small RNA expression
Abstract

High-throughput sequencing has allowed for a comprehensive small RNA (sRNA) expression analysis of numerous tissues in a diverse set of organisms. The computational analysis of the millions of generated sequencing reads has led to the discovery of novel miRNAs and other sRNA species, and resulted in a better understanding of the roles these sRNAs play in development and disease. This chapter describes the generation of sRNA deep-sequencing libraries for the Illumina massively parallel sequencing platform by using a cloning method that anneals specific RNA sequences to the 5′-and 3′-ends of the sRNA molecules.

Published
2012

13. Step into the Groove: Engineered Transcription Factors as Modulators of Gene Expression

Author

Visser, Astrid E., Verschure, Pernette J., Gommans, Willemijn M., Haisma, Hidde J., Rots, Marianne G., Hall, JC, Dunlap, JC, Friedmann, T, VanHeyningen, Groningen University Institute for Drug Exploration (GUIDE), Damage and Repair in Cancer Development and Cancer Treatment (DARE), Restoring Organ Function by Means of Regenerative Medicine (REGENERATE), and Biopharmaceuticals, Discovery, Design and Delivery (BDDD)

Subjects
Therapeutic gene modulation, Genetics, Regulation of gene expression, General transcription factor, HUMAN-CELLS, Response element, PYRROLE-IMIDAZOLE POLYAMIDES, E-box, Promoter, Computational biology, Biology, SHORT-INTERFERING RNAS, ZINC-FINGER PROTEINS, ENDOGENOUS GENE, ENDOTHELIAL GROWTH-FACTOR, CRYSTAL-STRUCTURE, Enhancer, Transcription factor, TARGET-SEQUENCE RECOGNITION, IN-VIVO, FACTOR-A
Abstract

Increasing knowledge about the influence of dysregulated gene expression in causing numerous diseases opens up new possibilities for the development of innovative therapeutics. In this chapter, we first describe different mechanisms of misregulated gene expression resulting in various pathophysiological conditions. Then, an overview is given of different technologies developed to readjust expression levels of genes. One of the most promising upcoming approaches in this respect is the development of engineered zinc-finger transcription factors. Results obtained from modulating endogenous gene expression using such engineered transcription factors are reviewed in depth. Finally, we address possible pitfalls of using such transcriptional targeting approaches at the "chromatin level." We describe aspects of studies at this level that influence successful DNA binding of engineered transcription factors, thereby affecting gene activity. Engineered transcription factors have great promise as potent therapeutics. Moreover, this technology is expected to yield fundamental knowledge about the organization and function of the genome. (c) 2006, Elsevier Inc.

Published
2006

15. Correction: A Functional Screen Identifies Specific MicroRNAs Capable of Inhibiting Human Melanoma Cell Viability

Author

Poell, Jos B., primary, van Haastert, Rick J., additional, de Gunst, Thijs, additional, Schultz, Iman J., additional, Gommans, Willemijn M., additional, Verheul, Mark, additional, Cerisoli, Francesco, additional, van Puijenbroek, Andre A.F.L., additional, van Noort, Paula I., additional, Prevost, Gregoire P., additional, Schaapveld, Roel Q. J., additional, and Cuppen, Edwin, additional

Published
2013
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16. A Functional Screen Identifies Specific MicroRNAs Capable of Inhibiting Human Melanoma Cell Viability

Author

Poell, Jos B., primary, van Haastert, Rick J., additional, de Gunst, Thijs, additional, Schultz, Iman J., additional, Gommans, Willemijn M., additional, Verheul, Mark, additional, Cerisoli, Francesco, additional, van Noort, Paula I., additional, Prevost, Gregoire P., additional, Schaapveld, Roel Q. J., additional, and Cuppen, Edwin, additional

Published
2012
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18. Abstract 1112: Identification of microRNA-based therapeutic candidates using a unique lentiviral microRNA overexpression library

Author

van Noort, Paula I., primary, Babae, Negar, additional, Poell, Jos B., additional, Bourajjaj, Meriem, additional, Vidic, Suzana, additional, van Beijnum, Judy R., additional, van Haastert, Rick J., additional, Schultz, Iman, additional, de Gunt, Thijs, additional, van Hooij, Onno, additional, Verhaegh, Gerald W., additional, Gommans, Willemijn M., additional, Cerisoli, Francesco, additional, Verheul, Mark, additional, Schiffelers, Raymond M., additional, Griffioen, Arjan W., additional, Schalken, Jack A., additional, Berezikov, Eugene, additional, Cuppen, Edwin, additional, Schaapveld, Roel QJ, additional, and Prevost, Gregoire P., additional

Published
2012
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19. Abstract A12: Identification of microRNA-based therapeutic candidates using a unique lentiviral microRNA overexpression library

Author

van Noort, Paula I., primary, Babae, Negar, additional, Verhaegh, Gerald W., additional, Gommans, Willemijn M., additional, Cerisoli, Francesco, additional, Verheul, Mark, additional, Schiffelers, Raymond M., additional, Griffioen, Arjan W., additional, Schalken, Jack A., additional, Berezikov, Eugene, additional, Cuppen, Edwin, additional, Schaapveld, Roel Q. J., additional, Poell, Jos B., additional, Prevost, Gregoire P., additional, Bourajjaj, Meriem, additional, Vidic, Suzanna, additional, van Beijnum, Judy R., additional, van Haastert, Rick J., additional, Schultz, Iman, additional, de Gunt, Thijs, additional, and van Hooij, Onno, additional

Published
2012
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25. 1073. Down-Regulation of Epithelial Glycoprotein-2 and VEGF-D by Engineered Zinc Finger Protein Transcription Factors

Author

Gommans, Willemijn M., Cool, Robbert H., McLaughlin, Pamela M.J., Laitinen, Olli H., Yla-Herttuala, Seppo, van der Zaal, Bert J., Haisma, Hidde J., and Rots, Marianne G.

Subjects
*GENETIC regulation, *TISSUES
Abstract

An abstract of the article "Down-Regulation of Epithelial Glycoprotein-2 and VEGF-D by Engineered Zinc Finger Protein Transcription Factors," by Willemijn M. Gommans and colleagues is presented.

Published
2005
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26. 314. The Epithelial Glycoprotein-2 Promoter for Highly Specific and Efficient Cancer Gene Therapy for a Broad Range of Tumors

Author

Gommans, Willemijn M., Duns, Gerben, McLaughlin, Pamela M.J., van Eert, Simone J., Yamamoto, Masato, Curiel, David T., Haisma, Hidde J., and Rots, Marianne G.

Subjects
*GENE therapy, *GLYCOPROTEINS
Abstract

An abstract of the article "The Epithelial Glycoprotein-2 Promoter for Highly Specific and Efficient Cancer Gene Therapy for a Broad Range of Tumors," by Willemijn M. Gommans, Gerben Duns, Pamela M. J. McLaughlin, Masato Yamamoto, David T. Curiel and Hidde J. Haisma is presented.

Published
2005
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27. Sample preparation for small RNA massive parallel sequencing.

Author

Gommans WM and Berezikov E

Subjects
Gene Library, RNA, Small Untranslated chemistry, Analytic Sample Preparation Methods methods, High-Throughput Nucleotide Sequencing, RNA, Small Untranslated genetics
Abstract

High-throughput sequencing has allowed for a comprehensive small RNA (sRNA) expression analysis of numerous tissues in a diverse set of organisms. The computational analysis of the millions of generated sequencing reads has led to the discovery of novel miRNAs and other sRNA species, and resulted in a better understanding of the roles these sRNAs play in development and disease. This chapter describes the generation of sRNA deep-sequencing libraries for the Illumina massively parallel sequencing platform by using a cloning method that anneals specific RNA sequences to the 5'- and 3'-ends of the sRNA molecules.

Published
2012
Full Text
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28. Controlling miRNA regulation in disease.

Author

Gommans WM and Berezikov E

Subjects
Animals, Disease genetics, Humans, RNA Processing, Post-Transcriptional, RNA, Messenger genetics, RNA, Messenger metabolism, Gene Expression Regulation, MicroRNAs genetics, MicroRNAs metabolism
Abstract

Our understanding of the importance of noncoding RNA molecules is steadily growing. One such important class of RNA molecules are microRNAs (miRNAs). These tiny RNAs fulfill important functions in cellular behavior by influencing the protein output levels of a high variety of genes through the regulation of target messenger RNAs. Moreover, miRNAs have been implicated in a wide range of diseases. In pathological conditions, the miRNA expression levels can be altered due to changes in the transcriptional or posttranscriptional regulation of miRNA expression. On the other side, mRNA molecules might be able to escape the regulation by miRNAs. In this review, we give an overview on how miRNA biogenesis can be altered in disease as well as how mRNAs can avoid the regulation by miRNAs. The interplay between these two processes defines the final protein output in a cell, and thus the normal or pathological cellular phenotype.

Published
2012
Full Text
View/download PDF

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