Page Comparison

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Correlation between BCR batch and the processing batch for 27k arrays (January 20, 2012):

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Batch

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Batch vs clinical traits

Clinical traits: 36, number of batches: 13

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Significant batch/trait correlations (complete table can be found here):
Wiki Markup{csv}KIRC_clinical_traits,DataType,NumberOfNAs,Test,Pvalue white_cell_count_result,factor,82,Pearson's Chi-squared test,2.09E-13 serum_calcium_result,factor,160,Pearson's Chi-squared test,8.31E-13 tumor_stage,factor,21,Pearson's Chi-squared test,2.11E-11 tumor_grade,factor,5,Pearson's Chi-squared test,6.43E-09 vital_status,factor,0,Pearson's Chi-squared test,9.62E-09 days_to_form_completion,integer,0,Kruskal-Wallis rank sum test,1.16E-07 year_of_initial_pathologic_diagnosis,integer,0,Kruskal-Wallis rank sum test,1.38E-07 days_to_last_known_alive,integer,10,Kruskal-Wallis rank sum test,8.41E-07 days_to_last_followup,integer,4,Kruskal-Wallis rank sum test,1.94E-06 distant_metastasis_pathologic_spread,factor,11,Pearson's Chi-squared test,2.23E-06 primary_tumor_pathologic_spread,factor,0,Pearson's Chi-squared test,3.63E-06 person_neoplasm_cancer_status,factor,28,Pearson's Chi-squared test,4.26E-06 hemoglobin_result,factor,71,Pearson's Chi-squared test,2.66E-04 lymphnode_pathologic_spread,factor,2,Pearson's Chi-squared test,7.85E-04 lymphnodes_examined_prior_presentation,factor,43,Pearson's Chi-squared test,2.05E-03 gender,factor,0,Pearson's Chi-squared test,2.10E-02 age_at_initial_pathologic_diagnosis,integer,0,Kruskal-Wallis rank sum test,2.51E-02 days_to_birth,integer,8,Kruskal-Wallis rank sum test,2.87E-02 prior_diagnosis,factor,0,Pearson's Chi-squared test,4.75E-02{csv}

Survival vs Batch

Summary can be found here, batch is significantly correlated with survival:
Likelihood ratio test= 61.35 on 10 df, p=2.007e-09
Wald test = 64.35 on 10 df, p=5.39e-10
Score (logrank) test = 75.35 on 10 df, p=4.066e-12

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