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
Gene expression1
Bioinformatics21
Biodiversity11
Biomedical science9
Ecology9
Genetic variation8
Metagenomics7
Sequence assembly7
Bioimaging6
Biological databases6
Genomics6
Imaging6
Oncology5
Sequence analysis5
Data mining4
Transcriptomics4
Workflows4
Compound libraries and screening3
Data quality management3
Drug discovery3
Metagenomic sequencing3
Preclinical and clinical studies3
Protein interactions3
Sample collections3
Sequencing3
Cheminformatics2
Data integration and warehousing2
DNA polymorphism2
Machine learning2
Microbiology2
Molecular interactions, pathways and networks2
Pharmacology2
Protein interaction experiment2
Proteomics2
Quantitative genetics2
Rare diseases2
Virology2
Agricultural science1
ChIP-seq1
Computational biology1
Computer science1
Copy number variation1
Data submission, annotation and curation1
Data visualisation1
DNA mutation1
Environmental science1
Epigenomics1
Gene structure1
Gene transcripts1
Genetics1
Human genetics1
Infectious disease1
Marine biology1
Medical imaging1
Medical informatics1
Medicinal chemistry1
Metabolomics1
Metatranscriptomics1
Microbial ecology1
Molecular genetics1
Nucleic acid sites, features and motifs1
Ontology and terminology1
Pathology1
Phylogenetics1
Physics1
Protein binding sites1
Protein folds and structural domains1
Protein variants1
Public health and epidemiology1
Structural variation1
More...
Operation annotations
Gene expression1
Maturity
Stable1
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 ...