Assays

What is an Assay?

7 Assays visible to you, out of a total of 7

The influence on functional enrichment analysis

The evolution of Gene Ontology

No description specified

Submitter: Yi Chen

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Exploring the Evolution of the Gene Ontology an...

Study: The influence of GO evolution on downstream ana...

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 8th Apr 2024 at 21:21, Last updated: 8th Apr 2024 at 21:24

GO evolution - Terms and Annotations

The evolution of Gene Ontology

No description specified

Submitter: Yi Chen

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Exploring the Evolution of the Gene Ontology an...

Study: Exploring how the concept and structure was inf...

Organisms: No organisms

SOPs: No SOPs

Data files: Reviewed and unreviewed proteins, Statistics of GO and GOA for 3 aspects from Jan..., Statistics of GO and GOA from Jan 2015 to Dec 2021, Top20 nodes with highest Degree Centrality score

Snapshots: No snapshots

Created: 8th Apr 2024 at 20:51, Last updated: 8th Apr 2024 at 21:11

Hub genes of modules and enriched GO terms

Consensus Hallmark Annotation

this assay include the hub genes of modules from different mapping schemes with highly functional similarities.

Submitter: Yi Chen

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: Cancer Hallmark Consensus

Study: Prognostic and Hallmark Gene Networks

Organisms: No organisms

SOPs: No SOPs

Data files: Gene enrichment analysis output of modules, Modules and hub genes, Semantic similarity between pairwise modules

Snapshots: No snapshots

Created: 7th Feb 2021 at 21:00, Last updated: 8th Mar 2021 at 10:43

WGCNA Prognostic Hallmark Genes

Consensus Hallmark Annotation

A Weighted Gene Co-Expression Network Analysis (WGCNA) of breast cancer prognostic genes (derived from transcriptome data from the TCGA Genomics Data Commons (GDC) data portal (https://portal.gdc.cancer.gov/)), and cancer hallmark genes.

Submitter: Katy Wolstencroft

Biological problem addressed: Biological Network Analysis

Investigation: Cancer Hallmark Consensus

Study: Prognostic and Hallmark Gene Networks

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: FPKM value of breast cancer patient, Prognostic-hallmark genes of GO1 with log trans..., Prognostic-hallmark genes of GO2 with log trans..., Prognostic-hallmark genes of GO3 with log trans..., Prognostic-hallmark genes of GO4 with log trans...

Snapshots: No snapshots

Created: 22nd Jan 2021 at 16:09, Last updated: 5th Mar 2021 at 17:57

Jaccard Index Prognostic Hallmark Genes

Consensus Hallmark Annotation

A Jaccard Index of the overlap between prognostic and hallmark genes for 17 cancer types across different mapping schemes. The impact of selecting different mapping schemes was assessed by pairwise comparisons where there were 5 or more shared genes.

Submitter: Katy Wolstencroft

Biological problem addressed: Biological Network Analysis

Investigation: Cancer Hallmark Consensus

Study: Prognostic and Hallmark Gene Networks

Organisms: No organisms

Models: No Models

SOPs: No SOPs

Data files: Abbreviations of 17 cancer types, Jaccard index score, prognostic genes of 17 cancer types

Snapshots: No snapshots

Created: 22nd Jan 2021 at 16:13, Last updated: 5th Mar 2021 at 10:05

Annotation Consensus and GO Consensus

Consensus Hallmark Annotation