Dear all,
the next seminar will take place tomorrow, please see the details below.
We look forward to seeing you all!
Title: Augusta, a Python package for inferring Gene Regulatory and
Boolean Networks using RNA-Seq and data mining
Speaker: Jana Musilová (Brno University of Technology)
Date and time: Wednesday 22/11/2023 - 17:20
Location: MFF UK, Malostranské nám. 25, lecture hall S3
https://bioinformatics.cuni.cz/seminar/
Best wishes,
Petr Danecek
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*Jana Musilová (Brno University of Technology)*
*/Augusta, a Python package for inferring Gene Regulatory and Boolean
Networks using RNA-Seq and data mining/*
Augusta is an open-source Python package for Gene Regulatory Network
(GRN) and Boolean Network (BN) inference, based on a unique approach
combining laboratory-generated data processing with the additional
knowledge incorporation. In detail, the first estimation of a GRN is
inferred by mutual information calculation from the high-throughput gene
expression data. Subsequently, the GRN is refined by predicting
transcription factor binding motifs within the promoters of regulated
genes and integrating verified interactions obtained from curated
databases. The refined GRN is finally transformed into a draft BN by
searching in the curated model database CellCollective and adding
logical rules to individual edges.