Computational protocol: High Expression of Aldolase B Confers a Poor Prognosis for Rectal Cancer Patients Receiving Neoadjuvant Chemoradiotherapy

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Protocol publication

[…] A published transcriptomic database (GSE35452), composed of 46 patients of rectal cancer doctored with preoperative chemoradiotherapy from Gene Expression Omnibus, National Center for Biotechnology Information (GEO, NCBI, Bethesda, MD, USA), was selected for research. The tumors were divided into “responder” and “non-responder” according to the response to neoadjuvant CCRT. We downloaded the raw .cel file and performed comparative analysis without filtering or preselection by the software--Nexus Expression 3 (BioDiscovery, El Segundo, CA, USA). Under supervision, we examined the statistical significance of each transcript by comparing responder and non-responder, focusing on the genes linked to glycolysis (GO:0006096). The transcripts with expression fold change > ± .1 log2 ratio and P-value < .01 were selected for additional evaluation. [...] IBM SPSS Statistics software, Version 22.0 (IBM Corporation, Armonk, NY, USA) was used for statistical analyses. After separating the study cohort into high- and low-expression of ALDOB (Aldolase B) by the median H-score of ALDOB immunoreactivity, Pearson's χ2 test was used for the relationship between ALDOB immunostaining and categorical important clinical and pathological parameters. Three prognostic indices—disease-specific survival (DSS), locoregional recurrent-free survival (LRFS) and metastasis-free survival (MeFS) were calculated from the days of tumor excision to those of events occurred. Kaplan-Meier survival curves compared with log-rank test was used in univariate survival analysis. Parameters with statistical significance in univariate analyses were enrolled in multivariate ones, for which, Cox model was used. For all analyses, only P value < .05 was considered as statistically significant under two-tailed tests. […]

Pipeline specifications

Software tools Nexus Expression, SPSS
Databases GEO
Applications Miscellaneous, WGS analysis
Organisms Homo sapiens
Diseases Adenocarcinoma, Neoplasms, Colorectal Neoplasms