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Related Concept Videos

Notch Signaling Pathway03:14

Notch Signaling Pathway

4.5K
The Notch signaling pathway is a major intracellular signaling pathway that is highly conserved over a broad spectrum of metazoan species. It stands unique from other intracellular signaling mechanisms in animals because notch protein itself acts as the receptor as well as the primary signaling molecule.
The Notch gene came into the limelight in 1914 after the discovery that its mutation in Drosophila melanogaster leads to a serrated (or "notched") wing margin phenotype. It was not...
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Role Of Notch Signalling In Intestinal Stem Cell Renewal01:12

Role Of Notch Signalling In Intestinal Stem Cell Renewal

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Notch signaling was first discovered in Drosophila melanogaster, where it is involved in cell lineage differentiation. Notch signaling regulates the maintenance and differentiation of intestinal stem cells or ISCs by controlling the expression of atonal homolog 1 or Atoh1. Atoh1 directs cells to differentiate into secretory cells.
Direct cell-to-cell contact is needed for the activation of Notch signaling. The signal is initiated when a notch ligand binds to a receptor on an adjacent cell, also...
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Canonical Wnt Signaling Pathway02:54

Canonical Wnt Signaling Pathway

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The gene encoding the main signaling molecules of the Wnt signaling pathways (the Wnt proteins) was discovered almost four decades ago by Nüsslein-Volhard and Wieschaus. They identified and originally named the gene "wingless" (wg) after a phenotype discovered during their landmark genetic screen in Drosophila for body pattern defects. At around the same time, another researcher named Harold Varmus found that a murine tumor virus activates the mammalian wg homolog, Int-1, which...
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TGF - β Signaling Pathway01:16

TGF - β Signaling Pathway

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The TGF-β signaling pathway regulates cell growth, differentiation, adhesion, motility, and development. TGF-β ligands that induce TGF-β signaling are synthesized in their latent form. Several proteases or cell surface receptors such as integrins act upon the latent form, releasing the active ligand. There are three types of mammalian TGF-βs: (TGF-β1, TGF-β2, and TGF-β3) that bind as homodimers or heterodimers to TGF-β receptors. The TGF-β receptors...
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Cell Signaling Feedback Loops01:07

Cell Signaling Feedback Loops

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Positive and negative feedback loops are crucial for regulating biological signaling systems. These feedback loops are processes that connect output signals to their inputs.
Negative feedback loops
Most signaling systems have negative feedback loops that can perform different functions such as output limiter, and adaptation.
Output limiter
Upon receiving an input signal, the cellular response rapidly increases until a threshold is reached. Beyond this threshold, a negative feedback loop...
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The JAK-STAT Signaling Pathway01:20

The JAK-STAT Signaling Pathway

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Several cytokine receptors have tightly bound Janus kinase or JAK proteins attached at their cytosolic tail. Small signaling molecules such as cytokines, growth hormones, or prolactins bind to the cytokine receptors and initiate their dimerization. The dimerization brings the cytosolic JAKs together that trans-phosphorylate and activates each other. The activated JAKs now phosphorylate cytosolic tails of the cytokine receptors, which serve as binding sites for adaptor proteins such as  SH2...
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Related Experiment Video

Updated: Sep 20, 2025

Integration of Bioinformatics Approaches and Experimental Validations to Understand the Role of Notch Signaling in Ovarian Cancer
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Integration of Bioinformatics Approaches and Experimental Validations to Understand the Role of Notch Signaling in Ovarian Cancer

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Bioinformatics Tools to Understand Notch.

Ashley Avila1, Roxana Gonzalez Tascon1, Dongyu Jia2

  • 1Department of Biology, Georgia Southern University, Statesboro, GA, USA.

Methods in Molecular Biology (Clifton, N.J.)
|June 8, 2022
PubMed
Summary
This summary is machine-generated.

Bioinformatics databases organize vast biological data, aiding gene research. This guide lists 39 databases and uses the NOTCH1 gene to show how to extract essential gene information for understanding its function and associated diseases.

Keywords:
Bioinformatics toolsNotch signaling

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Cell Aggregation Assays to Evaluate the Binding of the Drosophila Notch with Trans-Ligands and its Inhibition by Cis-Ligands
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Cell Aggregation Assays to Evaluate the Binding of the Drosophila Notch with Trans-Ligands and its Inhibition by Cis-Ligands

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Stimulation of Notch Signaling in Mouse Osteoclast Precursors
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Integration of Bioinformatics Approaches and Experimental Validations to Understand the Role of Notch Signaling in Ovarian Cancer
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Cell Aggregation Assays to Evaluate the Binding of the Drosophila Notch with Trans-Ligands and its Inhibition by Cis-Ligands
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Area of Science:

  • Bioinformatics
  • Genomics
  • Molecular Biology

Background:

  • The rapid growth of biological data presents challenges in data organization and retrieval, particularly for the human genome.
  • Bioinformatics has emerged as a critical field, enabling the development of specialized biological databases.
  • These databases offer organized, topic-specific reservoirs of information, simplifying data access.

Purpose of the Study:

  • To provide a curated list of 39 biological databases for gene information extraction.
  • To demonstrate the utility of biological databases using the NOTCH1 gene as a case study.
  • To outline a systematic approach for building a comprehensive understanding of a gene's fundamental details.

Main Methods:

  • Compilation of 39 relevant biological databases.
  • Categorization of databases into key areas: basic gene/protein information, protein interactions, signaling pathways, gene expression, disease associations, and model organisms.
  • Application of these databases to extract and analyze information pertaining to the NOTCH1 gene.

Main Results:

  • A comprehensive list of 39 biological databases is presented.
  • The NOTCH1 gene is used as an example to illustrate the process of extracting gene-specific data.
  • Databases are organized into five sections covering essential aspects of gene information.

Conclusions:

  • Biological databases are invaluable tools for navigating complex biological information.
  • Utilizing these databases allows for a thorough elucidation of gene structure, expression, and function.
  • The NOTCH1 gene serves as a model for understanding how to leverage databases to study gene roles in biological processes and diseases, particularly through the Notch signaling pathway.