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Li Zhang
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Room 12#228 |
I am an MSc student in
the PARNE Group of the College of Information Science & Technology
at Nanjing University of Aeronautics & Astronautics under the supervision of Dr Xuejun Liu .
Research Field:
- Probabilistic
method in finding differential gene expression.
Publications:
· Li Zhang. and Xuejun Liu, An improved probabilistic model for finding differential gene expression. the 2nd International Conference on BioM edical Eng ineering and Informatics, 17-19 October 2009 , Tianjin, China. (PDF)
Software
- ipplr: an R package to include probe-level error into the variance
estimates of gene expression levels and to detect up-regulated genes by
calculating probability of positive log-ratio.
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Version
Linux add-on package
Windows add-on package
ipplr_1.0
- puma: Most analyses of Affymetrix GeneChip data are based on point estimates of expression levels and ignore the uncertainty of such estimates. By propagating uncertainty to downstream analyses we can improve results from microarray analyses. For the first time, the puma package makes a suite of uncertainty propagation methods available to a general audience. puma also offers improvements in terms of scope and speed of execution over previously available uncertainty propagation methods. Included are summarisation, differential expression detection, clustering and PCA methods, together with useful plotting and data manipulation functions. Now, the version of puma package is puma_1.12.0.
- For my work, I only merge the ipplr package and pumaclustii package into the new puma package.
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Version
Linux add-on package
Windows add-on package
puma_1.99.0