Health Biosciences Research Approaches Quiz

What is the principle behind Over-Representation Analysis?

Statistically evaluating the fraction of genes in a particular pathway that shows changes in expression (correct)
Randomly selecting genes for pathway analysis
Determining the absolute number of genes in a pathway
Assessing the location of genes on a chromosome

What does Gene Set Enrichment Analysis (GSEA) fall under?

Transcriptomics dataset analysis
Gene Ontology Over-Representation Analysis
Chromosome mapping
Functional Class Scoring (correct)

What is the purpose of evaluating the fraction of genes in a pathway that shows changes in expression?

To identify the location of genes in a pathway
To determine if there is enrichment or overrepresentation in specific biological pathways (correct)
To count the total number of genes in a pathway
To randomly select genes for analysis

What percentage of genes showing big enrichment would indicate overrepresentation of a pathway?

20% (D) Signup and view all the answers

In Over-Representation Analysis, what does a significant p-value indicate?

The genes in a particular pathway are significantly affected (A) Signup and view all the answers

What does a poor enrichment and no overrepresentation in a pathway correspond to?

1% of genes belonging to the pathway (C) Signup and view all the answers

What is the focus of evaluating the fraction of genes in a particular pathway?

Determining if there is an enrichment or overrepresentation in specific biological pathways (C) Signup and view all the answers

In Over-Representation Analysis, what does the term 'functional subfunction' refer to?

Genes belonging to the same biological pathway (D) Signup and view all the answers

What is the purpose of pathway analysis?

To put genes in a functional context and identify dysregulated pathways (B) Signup and view all the answers

What is the focus of Over-representation Analysis (ORA)?

Identifying whether a pathway is overrepresented in the gene list (B) Signup and view all the answers

What is the main purpose of Gene Set Enrichment Analysis (GSEA)?

To determine whether a predefined set of genes shows statistically significant, concordant differences between two biological states (D) Signup and view all the answers

What does it mean to achieve data reduction in pathway analysis?

Reducing tens of thousands of genes to tens of pathways (B) Signup and view all the answers

What does evaluating the fraction of genes in a pathway that shows changes in expression provide?

More explanatory power about the modified functions/pathways/biological processes (C) Signup and view all the answers

What is the principle behind Over-representation Analysis (ORA)?

To compare the number of genes in a pathway with the number of genes in a random gene set (A) Signup and view all the answers

What is the primary goal of using GEO2R and WebGestalt in Gene Set Enrichment Analysis (GSEA)?

To perform GSEA and analyze the enrichment of gene sets (C) Signup and view all the answers

What is the primary goal of performing pathway analysis in the context of a microarray/RNA sequencing experiment?

To put the genes in a functional context and understand perturbed biological processes and dysregulated pathways (B) Signup and view all the answers

In pathway analysis, what is the purpose of Overrepresentation Analysis (ORA)?

To determine if a particular biological process or pathway is overrepresented in the list of genes of interest (B) Signup and view all the answers

What is the main focus of Gene Set Enrichment Analysis (GSEA) in pathway analysis?

To determine whether a predefined set of genes shows statistically significant, concordant differences between two biological states (D) Signup and view all the answers

What is the purpose of using GEO2R and WebGestalt in Gene Set Enrichment Analysis (GSEA)?

To perform differential gene expression analysis and identify enriched pathways (D) Signup and view all the answers

What does it mean to achieve data reduction in pathway analysis?

To reduce the thousands of genes to a smaller number of pathways for better interpretability (B) Signup and view all the answers

What does evaluating the fraction of genes in a pathway that shows changes in expression provide in pathway analysis?

Insights into the perturbed biological processes and dysregulated pathways (C) Signup and view all the answers

What is the focus of evaluating the fraction of genes in a particular pathway in pathway analysis?

To understand the impact of gene expression changes on the pathway's biological function (D) Signup and view all the answers

What does Over-Representation Analysis (ORA) aim to statistically evaluate?

The fraction of genes in a particular pathway that shows changes in expression (D) Signup and view all the answers

In Over-Representation Analysis, what indicates pathway enrichment?

A significantly affected group of genes belonging to a function or subfunction (D) Signup and view all the answers

What does a significant p-value in Over-Representation Analysis suggest?

The observed results are unlikely to be due to random chance (A) Signup and view all the answers

What is the focus of evaluating the fraction of genes in a pathway that shows changes in expression?

Determining if there is an enrichment or not in specific biological pathways (D) Signup and view all the answers

What does 'functional subfunction' refer to in Over-Representation Analysis?

Genes belonging to the same biological pathway (B) Signup and view all the answers

What percentage of genes showing big enrichment would indicate overrepresentation of a pathway?

20% (C) Signup and view all the answers

What is the primary goal of using Gene Set Enrichment Analysis (GSEA)?

To identify whether a set of genes shows statistically significant, concordant differences between two biological states (A) Signup and view all the answers

What is the purpose of evaluating the fraction of genes in a pathway that shows changes in expression?

To determine if there is an enrichment or not in specific biological pathways (B) Signup and view all the answers

Health Biosciences Research Approaches Quiz

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Questions and Answers

What is the principle behind Over-Representation Analysis?

What does Gene Set Enrichment Analysis (GSEA) fall under?

What is the purpose of evaluating the fraction of genes in a pathway that shows changes in expression?

What percentage of genes showing big enrichment would indicate overrepresentation of a pathway?

In Over-Representation Analysis, what does a significant p-value indicate?

What does a poor enrichment and no overrepresentation in a pathway correspond to?

What is the focus of evaluating the fraction of genes in a particular pathway?

In Over-Representation Analysis, what does the term 'functional subfunction' refer to?

What is the purpose of pathway analysis?

What is the focus of Over-representation Analysis (ORA)?

What is the main purpose of Gene Set Enrichment Analysis (GSEA)?

What does it mean to achieve data reduction in pathway analysis?

What does evaluating the fraction of genes in a pathway that shows changes in expression provide?

What is the principle behind Over-representation Analysis (ORA)?

What is the primary goal of using GEO2R and WebGestalt in Gene Set Enrichment Analysis (GSEA)?

What is the primary goal of performing pathway analysis in the context of a microarray/RNA sequencing experiment?

In pathway analysis, what is the purpose of Overrepresentation Analysis (ORA)?

What is the main focus of Gene Set Enrichment Analysis (GSEA) in pathway analysis?

What is the purpose of using GEO2R and WebGestalt in Gene Set Enrichment Analysis (GSEA)?

What does it mean to achieve data reduction in pathway analysis?

What does evaluating the fraction of genes in a pathway that shows changes in expression provide in pathway analysis?

What is the focus of evaluating the fraction of genes in a particular pathway in pathway analysis?

What does Over-Representation Analysis (ORA) aim to statistically evaluate?

In Over-Representation Analysis, what indicates pathway enrichment?

What does a significant p-value in Over-Representation Analysis suggest?

What is the focus of evaluating the fraction of genes in a pathway that shows changes in expression?

What does 'functional subfunction' refer to in Over-Representation Analysis?

What percentage of genes showing big enrichment would indicate overrepresentation of a pathway?

What is the primary goal of using Gene Set Enrichment Analysis (GSEA)?

What is the purpose of evaluating the fraction of genes in a pathway that shows changes in expression?

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