Usage instructions

Layers may be used in user-defined combinations. Please note that missing values are allowed in the uploaded data, but should be denoted by 'NA'. Please specify the gene ID nomenclature used in the input files uploaded to Metaranker. Ensembl gene IDs (preferred), Hugo gene symbols and Entrez gene IDs are supported. Please use space or tab as column separators.

1a. Format of genome-wide association data (mandatory)

The input file should consist of at least two columns containing the dbSNP SNP ID and association p-value. Please specify whether the file contains any header.

Example:
rs23694 0.1239
rs83232 1.9e-7
rs22331 0.9989

Please note that SNPs with non-valid p-values will be discarded and that 'NA' should be used for missing data in the p-value column.

1b. Format of SNP to gene mapping file

The SNP to gene mapping file should consist of exactely two columns and no header. The first column should specify the dbSNP SNP ID, while the second column should specify the associated gene.

Example:
rs23694 ENSG00000232602
rs23694 ENSG00000199602
rs22331 ENSG00000198421

2. Format of susceptibility genes data

Please specify a file containing phenotype-specific susceptiblity genes (one per line) or paste the genes into the formular field (one per line).

Example:
ENSG00000232602
ENSG00000179819
ENSG00000198421

3. Format of linkage data

This file should contain three columns. The first column should contain the chromosome, the second column should contain the chromosomal band, and the third column should contain the LOD score reported in the original linkage study. If no LOD score are available, please use the value 1 for each interval. Please not that consequtive bands cannot be abreviated as e.g. 2q22-2q24 but needs to be formated as shown in the example below. Please indicated whether the file contains any header.

Example:
16 p12 2.8
2 q22 3.1
2 q23 3.1
2 q24 3.1

4. Phenotype-specif keyword selection

Please choose the risk-phenotype keyword that is resembling your phenotype of interest most closely. If there is no good match please leave the field unchanged.

5. Format of differential gene expression data

This file should contain at least two columns, the first holding the gene ID and the second holding the differential expression p-value. Please indicate whether the file contains any header. If fold-changes should be used rather than differential expression values please provide the list of genes along with the absolut values of their foldchanges and indicate the the list should be sorted descendingly.

Example:
ENSG000001226010.0639
ENSG000004228131.6e-5
ENSG000005229990.8933

6. Submit the job

Click on the "Submit" button. The status of your job (either 'queued' or 'running') will be displayed and constantly updated until it terminates and the server output appears in the browser window.

At any time during the wait you may enter your e-mail address and simply leave the window. Your job will continue; you will be notified by e-mail when it has terminated. The e-mail message will contain the URL under which the results are stored; they will remain on the server for 24 hours for you to collect them.