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Related Concept Videos

Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Genetic Screens02:46

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...
Gene Families01:57

Gene Families

Gene families consist of groups of genes proposed to have originated from a common ancestor. Typically these arise through events in which a gene or genes are mistakenly duplicated during cell division. Unlike their parent genes (which are subject to selection pressure to maintain function), these gene copies do not need to preserve their sequences and may evolve at a relatively faster rate.
Occasionally these regions can be adapted to take on new roles within the organism, becoming novel genes...

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Related Experiment Video

Updated: May 12, 2026

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions
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Published on: March 5, 2022

Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool.

Edward Y Chen1, Christopher M Tan, Yan Kou

  • 1Department of Pharmacology and Systems Therapeutics, Icahn School of Medicine at Mount Sinai, One Gustave L, Levy Place, Box 1215, New York, NY 10029, USA.

BMC Bioinformatics
|April 17, 2013
PubMed
Summary

Enrichr is a new web-based tool for analyzing gene lists, offering improved gene-set libraries and interactive visualizations. It helps uncover biological insights by comparing gene expression patterns, aiding in cancer research and beyond.

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Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Gene and protein expression profiling generates large datasets requiring functional analysis.
  • Existing gene-set enrichment analysis tools and databases have limitations.
  • Extracting novel biological knowledge necessitates improved analytical approaches.

Purpose of the Study:

  • To introduce Enrichr, an integrated web and mobile application for gene list enrichment analysis.
  • To provide enhanced gene-set libraries and novel visualization methods.
  • To offer a versatile tool for biological data interpretation.

Main Methods:

  • Developed Enrichr, a web-based and mobile software application.
  • Integrated new gene-set libraries and an alternative ranking approach for enriched terms.
  • Utilized Data Driven Documents (D3) for interactive visualization of enrichment results.
  • Applied Enrichr to analyze gene expression data from nine cancer cell lines against matched normal tissues.

Main Results:

  • Enrichr facilitates the analysis of gene lists with enhanced visualization.
  • Analysis revealed common upregulation of polycomb group PRC2 and H3K27me3 enrichment in cancer cell lines.
  • Specific alterations in Toll-like receptor and interleukin signaling were identified in K562 cells compared to normal cells.
  • The tool provides global visualization of differences between normal and cancer tissues.

Conclusions:

  • Enrichr is an intuitive, open-source web tool for enrichment analysis.
  • It offers diverse visualization summaries of gene list functions.
  • The tool is freely available online and can be embedded into other analysis platforms.