Welcome

CIRES (correlation index-based responsible-enzyme gene screening) is a method to predict regulatory enzyme gene(s) in the biosynthesis of glycan structure of interest. To achieve this, CIRES utilizes quantitative genotype-phenotype correlation. Here, transcriptomic expression data of the glycan-related genes (such as glycosyltransferase genes) is used for “genotype” and cell surface glycan expression is used for “phenotype”. Glycan expression strength is profiled in multiple cell lines and for statistical correlation analysis against glycan-related gene expressions. Cross-sample comparisons are performed by calculating Pearson’s correlation coefficients between gene expression profiles and glycan expression profiles.( More details )

Major strength of CIRES is that not only the enzymes directly involved in the biosynthesis but also the enzymes indirectly affecting the pathway can be listed up. It is a systemic strategy that makes this possible (Yamamoto H, et al, (2007) PLoS ONE 2(11): e1232. doi:10.1371/journal.pone.0001232).

Obtaining transcriptomic gene expression profiles are labor and cost-intensive experiments, thus we thought to reuse the profile over and over again. Multiple cell lines among commonly cultured cells are chosen from the list of gene data and “glycan expression profile” is made by a user. Prepared glycan expression profiles such as lectin-staining data will be submitted to the CIRES correlation calculation. This database will calculate the gene(s) similar or dissimilar to the glycan expression profile among choice of cells as genes likely to positively and negatively regulate the glycan of interest, respectively.

Getting Started

To apply CIRES analysis process, your lectin data (“glycan expression profile” as quantitative phenotypic data) is required. Before uploading your data, please set following properties.

Currently, the CIRES database could be used by three different gene expression datasets obtained through DNA microarray. To generate an input-table, select one Gene data source and set the number of cells in your “glycan expression profile” and your number of lectins. Then fill the input table and upload your “glycan expression profile”. You can also directly type in your glycan expression data to the input-table. Finally, submit for correlation calculation.

Field Setting

Use Sample Data
If you want to upload csv file
template file download
Sources Gene Data

Number of Columns (Cell Lines)
Number of Rows (Lectins)

About Gene Data

Not selected. For more details .

Available Cell Lines

Upload lectin (“glycan expression profile”) data

Your Lectin Data will be filled to the input-table. Select cell line name for columns, set lectin name (glycan) for rows and insert glycan-expression values for data fields.