MERAV: a tool for comparing gene expression across human tissues and cell types
The oncogenic transformation of normal cells into malignant, rapidly proliferating cells requires major alterations in cell physiology. For example, the transformed cells remodel their metabolic processes to supply the additional demand for cellular building blocks. We have recently demonstrated ess...
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| Format: | Article |
| Language: | en_US |
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Oxford University Press
2017
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| Online Access: | http://hdl.handle.net/1721.1/107905 https://orcid.org/0000-0002-1446-7256 |
| _version_ | 1811097442131640320 |
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| author | Shaul, Yoav D. Yuan, Bingbing Thiru, Prathapan Nutter-Upham, Andy McCallum, Scott Bell, George W. Lanzkron, Carolyn Sabatini, David |
| author2 | Massachusetts Institute of Technology. Department of Biology |
| author_facet | Massachusetts Institute of Technology. Department of Biology Shaul, Yoav D. Yuan, Bingbing Thiru, Prathapan Nutter-Upham, Andy McCallum, Scott Bell, George W. Lanzkron, Carolyn Sabatini, David |
| author_sort | Shaul, Yoav D. |
| collection | MIT |
| description | The oncogenic transformation of normal cells into malignant, rapidly proliferating cells requires major alterations in cell physiology. For example, the transformed cells remodel their metabolic processes to supply the additional demand for cellular building blocks. We have recently demonstrated essential metabolic processes in tumor progression through the development of a methodological analysis of gene expression. Here, we present the Metabolic gEne RApid Visualizer (MERAV, http://merav.wi.mit.edu), a web-based tool that can query a database comprising ∼4300 microarrays, representing human gene expression in normal tissues, cancer cell lines and primary tumors. MERAV has been designed as a powerful tool for whole genome analysis which offers multiple advantages: one can search many genes in parallel; compare gene expression among different tissue types as well as between normal and cancer cells; download raw data; and generate heatmaps; and finally, use its internal statistical tool. Most importantly, MERAV has been designed as a unique tool for analyzing metabolic processes as it includes matrixes specifically focused on metabolic genes and is linked to the Kyoto Encyclopedia of Genes and Genomes pathway search. |
| first_indexed | 2024-09-23T16:59:36Z |
| format | Article |
| id | mit-1721.1/107905 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T16:59:36Z |
| publishDate | 2017 |
| publisher | Oxford University Press |
| record_format | dspace |
| spelling | mit-1721.1/1079052022-09-29T22:56:39Z MERAV: a tool for comparing gene expression across human tissues and cell types Shaul, Yoav D. Yuan, Bingbing Thiru, Prathapan Nutter-Upham, Andy McCallum, Scott Bell, George W. Lanzkron, Carolyn Sabatini, David Massachusetts Institute of Technology. Department of Biology Lanzkron, Carolyn Sabatini, David The oncogenic transformation of normal cells into malignant, rapidly proliferating cells requires major alterations in cell physiology. For example, the transformed cells remodel their metabolic processes to supply the additional demand for cellular building blocks. We have recently demonstrated essential metabolic processes in tumor progression through the development of a methodological analysis of gene expression. Here, we present the Metabolic gEne RApid Visualizer (MERAV, http://merav.wi.mit.edu), a web-based tool that can query a database comprising ∼4300 microarrays, representing human gene expression in normal tissues, cancer cell lines and primary tumors. MERAV has been designed as a powerful tool for whole genome analysis which offers multiple advantages: one can search many genes in parallel; compare gene expression among different tissue types as well as between normal and cancer cells; download raw data; and generate heatmaps; and finally, use its internal statistical tool. Most importantly, MERAV has been designed as a unique tool for analyzing metabolic processes as it includes matrixes specifically focused on metabolic genes and is linked to the Kyoto Encyclopedia of Genes and Genomes pathway search. United States. National Institutes of Health (CA103866) United States. National Institutes of Health (AI47389) Life Sciences Research Foundation Massachusetts Institute of Technology. Ludwig Center for Molecular Oncology Howard Hughes Medical Institute 2017-04-06T18:26:26Z 2017-04-06T18:26:26Z 2017-04-06 Article http://purl.org/eprint/type/JournalArticle 0305-1048 1362-4962 http://hdl.handle.net/1721.1/107905 Shaul, Yoav D., Bingbing Yuan, Prathapan Thiru, Andy Nutter-Upham, Scott McCallum, Carolyn Lanzkron, George W. Bell, and David M. Sabatini. “MERAV: a Tool for Comparing Gene Expression Across Human Tissues and Cell Types.” Nucleic Acids Research 44, no. D1 (November 30, 2015): D560–D566. https://orcid.org/0000-0002-1446-7256 en_US http://dx.doi.org/10.1093/nar/gkv1337 Nucleic Acids Research Creative Commons Attribution-NonCommercial 4.0 International http://creativecommons.org/licenses/by-nc/4.0/ application/pdf Oxford University Press Oxford University Press |
| spellingShingle | Shaul, Yoav D. Yuan, Bingbing Thiru, Prathapan Nutter-Upham, Andy McCallum, Scott Bell, George W. Lanzkron, Carolyn Sabatini, David MERAV: a tool for comparing gene expression across human tissues and cell types |
| title | MERAV: a tool for comparing gene expression across human tissues and cell types |
| title_full | MERAV: a tool for comparing gene expression across human tissues and cell types |
| title_fullStr | MERAV: a tool for comparing gene expression across human tissues and cell types |
| title_full_unstemmed | MERAV: a tool for comparing gene expression across human tissues and cell types |
| title_short | MERAV: a tool for comparing gene expression across human tissues and cell types |
| title_sort | merav a tool for comparing gene expression across human tissues and cell types |
| url | http://hdl.handle.net/1721.1/107905 https://orcid.org/0000-0002-1446-7256 |
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