1. Define your topic of interest:

• articles matching the following PubMed query
• all articles associated with the following MeSH terms (MeSH browser)
• only the following PMIDs

one per line

Examples: Phosphorylation in Yeast, Cell Cycle in E. Coli, Host-Pathogen Interactions in Arabidopsis, Neurodegenerative Diseases in Mouse, Stem Cells in Rat, Alzheimer Disease in Human.

2. Select the genes to be ranked:

• all genes from this species (a taxonomic ID or scientific name)
• only the following NCBI Entrez Gene IDs

one per line

Examples of species: human, chimpanzee, cattle, dog, mouse, rat, chicken, african clawed frog, zebrafish, nematode, yeast, drosophila. arabidopsis, or rice.



• Type of gene: All miscRNA ncRNA other protein-coding pseudo rRNA scRNA snoRNA snRNA tRNA unknown
• P-value cutoff for abstracts selection: user-defined high precision (beta feature) best precision (beta feature) high F-measure (beta feature) best F-measure (beta feature)
• False discovery rate cutoff for genes selection:

3. Optional: Include orthologous genes in other species

• no orthologs
• all possible orthologs (slower)
• only orthologs in the following species (enter one or more NCBI Taxonomic IDs or scientific names)

one per line

Orthology information available for species listed below: