Workflows
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Workflow type
Python1
Tag
Bioinformatics1
gene expression correlation1
gene expression data wrangling1
geo database mining1
Submitter
Yasmmin Martins1
Space
Independent Teams1
Topic annotations
Expression correlation analysis1
Operation annotations
Expression correlation analysis1
Data retrieval3
Gene-set enrichment analysis2
Modelling and simulation2
Prediction and recognition2
Protein interaction network analysis2
Protein interaction network prediction2
Named-entity and concept recognition1
Protein-protein interaction analysis1
Relation extraction1
Text annotation1
Text mining1
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Maturity
Stable1
1
Workflow matching the given criteria:
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Operation annotations:
Expression correlation analysis1
Stable
Summary
The PPI information aggregation pipeline starts getting all the datasets in GEO database whose material was generated using expression profiling by high throughput sequencing. From each database identifiers, it extracts the supplementary files that had the counts table. Once finishing the download step, it identifies those that were normalized or had the raw counts to normalize. It also identify and map the gene ids to uniprot (the ids found usually ...
