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hepatocellular_carcinoma [2019/09/11 20:02]
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   - Hart, Steven N., et al. "​Calculating sample size estimates for RNA sequencing data." //Journal of Computational [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​|Biology]]//​20.12 (2013): 970-978.Wu, Hao, Chi Wang, and Zhijin Wu. "​PROPER:​ comprehensive power evaluation for differential expression using RNA-seq."​ //​[[http://​bioinformatics.oxfordjournals.org/​content/​31/​2/​233.short|Bioinformatics]]//​31.2 (2015): 233-241.From [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​figure/​f2/​|Fig2]] and [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​figure/​f2/​|Fig3]] of Huang et al. paper, and [[http://​bioinformatics.oxfordjournals.org.libproxy.txstate.edu/​content/​31/​2/​233/​F5.expansion.html|Fig5]] of Hart et al., it seems that at least 5-7 samples are needed for each condition.   - Hart, Steven N., et al. "​Calculating sample size estimates for RNA sequencing data." //Journal of Computational [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​|Biology]]//​20.12 (2013): 970-978.Wu, Hao, Chi Wang, and Zhijin Wu. "​PROPER:​ comprehensive power evaluation for differential expression using RNA-seq."​ //​[[http://​bioinformatics.oxfordjournals.org/​content/​31/​2/​233.short|Bioinformatics]]//​31.2 (2015): 233-241.From [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​figure/​f2/​|Fig2]] and [[http://​www.ncbi.nlm.nih.gov/​pmc/​articles/​PMC3842884/​figure/​f2/​|Fig3]] of Huang et al. paper, and [[http://​bioinformatics.oxfordjournals.org.libproxy.txstate.edu/​content/​31/​2/​233/​F5.expansion.html|Fig5]] of Hart et al., it seems that at least 5-7 samples are needed for each condition.
   - Ching, Travers, Sijia Huang, and Lana X. Garmire. "Power analysis and sample size estimation for RNA-Seq differential expression."​ //​[[http://​rnajournal.cshlp.org/​content/​early/​2014/​09/​22/​rna.046011.114|rna]]//​20.11 (2014): 1684-1696.   - Ching, Travers, Sijia Huang, and Lana X. Garmire. "Power analysis and sample size estimation for RNA-Seq differential expression."​ //​[[http://​rnajournal.cshlp.org/​content/​early/​2014/​09/​22/​rna.046011.114|rna]]//​20.11 (2014): 1684-1696.
-  - Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma, [[http://​www.cell.com/​cell/​abstract/​S0092-8674(17)30639-6?​innerTabgraphical_S0092867417306396|Cell]],​ 2017 [{{:​ally-copmprehensive_and_integrative_genomic_char_of_hcc-cell-2017.pdf|pdf}} ]. TCGA's HCC data and subtyping using DNA copy number, DNA methylation,​ mRNA expression, miRNA expression and RPPA (protein expression). Links to the MDACC dataset with 100 HCC samples.+  - Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma, [[http://​www.cell.com/​cell/​abstract/​S0092-8674(17)30639-6?​innerTabgraphical_S0092867417306396|Cell]],​ 2017 [{{:​ally-copmprehensive_and_integrative_genomic_char_of_hcc-cell-2017.pdf|pdf}} ​ ]. TCGA's HCC data and subtyping using DNA copy number, DNA methylation,​ mRNA expression, miRNA expression and RPPA (protein expression). Links to the MDACC dataset with 100 HCC samples
 +  - Subramaniam,​ Somasundaram,​ Robin K. Kelley, and Alan P. Venook. "A review of hepatocellular carcinoma (HCC) staging systems."​ [[http://​cco.amegroups.com/​article/​view/​2528/​3943|Chinese clinical oncology]] 2.4 (2013).
  
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