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Visor for mass spectrometry JSON files generated by Integrator
...For more information, you can have a look at the README.md file in the source code tree:
https://sourceforge.net/p/lp-csic-uab/jsonvisor3/code/ci/default/tree/README.md
- Gallardo, Ó., Ovelleiro, D., Gay, M., Carrascal, M., & Abian, J. (2014). A collection of open source applications for mass spectrometry data mining. PROTEOMICS, 14(20), 2275–2279. https://doi.org/10.1002/pmic.201400124
...For more information, you can have a look at the README.md file in the source code tree:
https://sourceforge.net/p/lp-csic-uab/easiermgf3/code/ci/default/tree/README.md
- Gallardo, Ó., Ovelleiro, D., Gay, M., Carrascal, M., & Abian, J. (2014). A collection of open source applications for mass spectrometry data mining. PROTEOMICS, 14(20), 2275–2279. https://doi.org/10.1002/pmic.201400124
...DOI: 10.1002/pmic.200800701
- Gallardo, Ó., Ovelleiro, D., Gay, M., Carrascal, M., Abian, J., A collection of open source applications for mass spectrometry data mining. Proteomics 2014, 20, 2275-2279. DOI: 10.1002/pmic.20140012
Design of specific primer combinations for bisulfite sequencing
...SpG islands) and includes specificity test (based on bowtie alignment against bisulfite-treated genome).
It also incorporates TCGA CpG methylation (microarrays) and gene expression (RNA-Seq) data, as well as methylation-expression correlation analysis results for 20 human cancer types.
ENCODE genome regions annotation data are also integrated in MethyMer
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