Rummagene and Rummageo: Automated Mining of Gene Sets from PubMed Central (PMC) and the Gene Expression Omnibus (GEO)
When: Jan. 24th, 2024 11:00 am - 12:00 pm
Learning Level: Beginner
To Know
About this Class
Dear colleagues,
Please join us on Wed., Jan. 24 when Dr. Avi Ma’ayan from the Icahn School of Medicine at Mount Sinai will demonstrate how to use these tools to access hundreds of thousands of gene sets. The tools include:
• Rummagene, which lets you access human and mouse gene-sets from the supporting materials in PubMed Central (PMC). To date, researchers have used the softbot to scan 5,670,312 PMC articles, uncovering 126,390 articles with 667,029 gene sets.
• Rummageo, which gives you access to gene sets from human and mouse RNA-seq studies in the Gene Expression Omnibus (GEO) database. Rummageo currently contains 135,264 human and 158,062 mouse gene-sets from 23,395 GEO studies.
Research in the Ma'ayan Lab involves applying computational methods to study the complexity of regulatory networks in mammalian cells. The lab team develops algorithms and software to study how regulatory networks control cellular processes such as differentiation, dedifferentiation, apoptosis, and proliferation.
Research in the Ma'ayan Lab involves applying computational methods to study the complexity of regulatory networks in mammalian cells. The lab team develops algorithms and software to study how regulatory networks control cellular processes such as differentiation, dedifferentiation, apoptosis, and proliferation.