Title |
virtualArray: a R/bioconductor package to merge raw data from different microarray platforms
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Published in |
BMC Bioinformatics, March 2013
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DOI | 10.1186/1471-2105-14-75 |
Pubmed ID | |
Authors |
Andreas Heider, Rüdiger Alt |
Abstract |
Microarrays have become a routine tool to address diverse biological questions. Therefore, different types and generations of microarrays have been produced by several manufacturers over time. Likewise, the diversity of raw data deposited in public databases such as NCBI GEO or EBI ArrayExpress has grown enormously.This has resulted in databases currently containing several hundred thousand microarray samples clustered by different species, manufacturers and chip generations. While one of the original goals of these databases was to make the data available to other researchers for independent analysis and, where appropriate, integration with their own data, current software implementations could not provide that feature.Only those data sets generated on the same chip platform can be readily combined and even here there are batch effects to be taken care of. A straightforward approach to deal with multiple chip types and batch effects has been missing.The software presented here was designed to solve both of these problems in a convenient and user friendly way. |
X Demographics
Geographical breakdown
Country | Count | As % |
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United States | 2 | 13% |
United Kingdom | 2 | 13% |
India | 1 | 7% |
Norway | 1 | 7% |
Finland | 1 | 7% |
Germany | 1 | 7% |
Australia | 1 | 7% |
Unknown | 6 | 40% |
Demographic breakdown
Type | Count | As % |
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Members of the public | 7 | 47% |
Scientists | 6 | 40% |
Practitioners (doctors, other healthcare professionals) | 2 | 13% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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United States | 3 | 2% |
United Kingdom | 2 | 1% |
Ukraine | 2 | 1% |
Netherlands | 1 | <1% |
South Africa | 1 | <1% |
Germany | 1 | <1% |
Malaysia | 1 | <1% |
Belgium | 1 | <1% |
India | 1 | <1% |
Other | 4 | 3% |
Unknown | 122 | 88% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 42 | 30% |
Student > Ph. D. Student | 29 | 21% |
Student > Master | 13 | 9% |
Other | 11 | 8% |
Student > Doctoral Student | 10 | 7% |
Other | 26 | 19% |
Unknown | 8 | 6% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 66 | 47% |
Biochemistry, Genetics and Molecular Biology | 21 | 15% |
Computer Science | 16 | 12% |
Medicine and Dentistry | 9 | 6% |
Mathematics | 4 | 3% |
Other | 10 | 7% |
Unknown | 13 | 9% |