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Related Concept Videos

Overview of Cell Death01:30

Overview of Cell Death

Cell death is an essential process where the body gets rid of old or damaged cells. Cell proliferation and death need to be balanced, as an imbalance between the two may lead to cancer or autoimmune diseases.
Cell death was observed in the early 19th century, but there was no experimental evidence to prove it. In 1842, Carl Vogt first discovered cell death in a metamorphic toad; however, it was not termed ‘cell death.’ Scientists discovered different cell death pathways only in the 20th century...
Autophagic Cell Death01:18

Autophagic Cell Death

Christian de Duve discovered “autophagy,” a process in which cellular components are engulfed by membrane-bound organelles called autophagosomes. The autophagosomes then fuse with lysosomes to digest the enclosed contents. Autophagy is generally activated in cells to prevent cell death. However, cell death is triggered when the damage is beyond repair.
Autophagy and Apoptosis
Autophagy can activate apoptosis. In normal conditions, the autophagy activating protein Beclin-1 and pro-apoptotic...
Proteomics01:33

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term proteomics...
Cellular Injury IlI: Cellular Death01:11

Cellular Injury IlI: Cellular Death

Cell death is the irreversible loss of cellular structure and function, representing the final stage of severe injury. It plays a key role in both normal physiology and disease.Types of Cell DeathThe two main types are necrosis and apoptosis, though others like necroptosis and pyroptosis also exist.Necrosis:Necrosis is an unregulated form of cell death caused by severe injury such as trauma, toxins, or ischemia. It is characterized by cell swelling, membrane loss, rupture, and leakage of...
Cellular Injury V: Apoptosis and Autophagy01:22

Cellular Injury V: Apoptosis and Autophagy

Cells respond to damage and stress through highly coordinated processes that decide whether they survive or undergo controlled self-destruction. Two major pathways involved in this regulation are apoptosis, a type of programmed cell death, and autophagy, a survival mechanism that helps cells adapt to adverse conditions.ApoptosisApoptosis removes aged or injured cells to maintain tissue balance. During this process, the cell shrinks, chromatin condenses and fragments, and membrane-bound...
Regulation of the Unfolded Protein Response01:31

Regulation of the Unfolded Protein Response

Inositol-requiring kinase one or IRE1 is the most conserved eukaryotic unfolded protein response (UPR) receptor. It is a type I transmembrane protein kinase receptor with a distinctive site-specific RNase activity. As the binding mechanics of the misfolded proteins with the N-terminal domain of IRE-1 are unclear, three binding models — direct, indirect, and allosteric -- are proposed for receptor activation. Nevertheless, it is known that once a misfolded protein associates with IRE1, it...

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MEDUSA for Identifying Death Regulatory Genes in Chemo-genetic Profiling Data
07:17

MEDUSA for Identifying Death Regulatory Genes in Chemo-genetic Profiling Data

Published on: February 7, 2025

Cell death proteomics database: consolidating proteomics data on cell death.

Magnus Ø Arntzen1, Vibeke H Bull, Bernd Thiede

  • 1The Biotechnology Centre of Oslo, University of Oslo, 0317 Oslo, Norway. magnus.arntzen@biotek.uio.no

Journal of Proteome Research
|March 30, 2013
PubMed
Summary
This summary is machine-generated.

The Cell Death Proteomics (CDP) database consolidates protein data from various programmed cell death studies. This resource aids researchers in comparing proteomic insights across different cell death forms like apoptosis and autophagy.

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Last Updated: May 12, 2026

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JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics
07:28

JUMPn: A Streamlined Application for Protein Co-Expression Clustering and Network Analysis in Proteomics

Published on: October 19, 2021

Area of Science:

  • Molecular Biology
  • Biochemistry
  • Cell Biology

Background:

  • Programmed cell death is crucial for multicellular organisms, with over 10 identified forms.
  • Proteomics analyses have identified proteins involved in various programmed cell death pathways.
  • Existing data is fragmented across numerous studies and experimental setups.

Purpose of the Study:

  • To develop a centralized, web-based database for programmed cell death proteomics data.
  • To facilitate comparison of protein identifications and quantitative data across diverse experimental conditions.
  • To provide a unified resource for exploring proteins involved in multiple programmed cell death forms.

Main Methods:

  • Integrated proteomics data from 73 publications into a single database.
  • Unified protein identifications with annotations from UniProt-KB and Gene Ontology (GO).
  • Developed a web-based platform for data accessibility and comparative analysis.

Main Results:

  • The Cell Death Proteomics (CDP) database currently contains over 6,500 records for more than 3,700 proteins.
  • Comparative analysis of apoptosis and autophagy revealed shared and distinct enriched Gene Ontology (GO) processes.
  • Differences and similarities were identified between the proteomes of autophagosomes and overall autophagy.

Conclusions:

  • The CDP database serves as a valuable tool for consolidating and analyzing proteomics data related to programmed cell death.
  • It enables researchers to gain deeper insights into the molecular mechanisms underlying different cell death pathways.
  • The database facilitates cross-study comparisons, advancing the understanding of cell death biology.