Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

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...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Why is Biomarker Assay Validation Different from that of Pharmacokinetic Assays?

The AAPS journal·2025
Same author

Purification and identification of candidate biomarkers discovered using SELDI-TOF MS.

Methods in molecular biology (Clifton, N.J.)·2011
Same author

Proteomic profiling of amniotic fluid in preterm labor using two-dimensional liquid separation and mass spectrometry.

The journal of maternal-fetal & neonatal medicine : the official journal of the European Association of Perinatal Medicine, the Federation of Asia and Oceania Perinatal Societies, the International Society of Perinatal Obstetricians·2008
Same author

SELDI-TOF-MS ProteinChip array profiling of tears from patients with dry eye.

Investigative ophthalmology & visual science·2005
Same author

Estriol bound and ligand-free structures of sterol 14alpha-demethylase.

Structure (London, England : 1993)·2004
Same author

Serum protein profile alterations in hemodialysis patients.

American journal of nephrology·2004
Same journal

Nanotechnology-Stem Cell Strategies in 3D Glioblastoma Organoid: Targeting Glioma Stem Cells Within a Complex Tumor Microenvironment.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Mapping the 3D Chromosome Organization of a Biosynthetic Gene Cluster by Capture Hi-C (CHi-C).

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Mapping the 3D Chromosome Organization of Streptomyces by Hi-C.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

CUT&Tag Epigenomic Profiling of Biosynthetic Gene Clusters in Arabidopsis thaliana.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Rhizobium rhizogenes-Mediated Hairy Root Transformation Protocol for Lotus japonicus and Other Legumes.

Methods in molecular biology (Clifton, N.J.)·2026
Same journal

Characterization of Bioactive Saponins from Sea Cucumbers.

Methods in molecular biology (Clifton, N.J.)·2026
See all related articles

Related Experiment Video

Updated: May 27, 2026

DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems
12:24

DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems

Published on: July 21, 2014

Data processing and analysis using ProteinChip® data manager software.

Enrique A Dalmasso1, Dominic Caseñas

  • 1Bio-Rad Laboratories, Hercules, CA, USA. eadalmasso@gmail.com

Methods in Molecular Biology (Clifton, N.J.)
|November 16, 2011
PubMed
Summary
This summary is machine-generated.

This study outlines a workflow for analyzing mass spectrometry data from clinical proteomics and biomarker research. It focuses on processing large datasets generated by the Surface Enhanced Laser Desorption/Ionization ProteinChip (SELDI) system using specific software tools.

More Related Videos

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
09:14

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

Detection of a CDH1 Rare Transcript Variant in Fresh-frozen Gastric Cancer Tissues by Chip-based Digital PCR
09:16

Detection of a CDH1 Rare Transcript Variant in Fresh-frozen Gastric Cancer Tissues by Chip-based Digital PCR

Published on: February 5, 2018

Related Experiment Videos

Last Updated: May 27, 2026

DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems
12:24

DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems

Published on: July 21, 2014

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens
09:14

Informatic Analysis of Sequence Data from Batch Yeast 2-Hybrid Screens

Published on: June 28, 2018

Detection of a CDH1 Rare Transcript Variant in Fresh-frozen Gastric Cancer Tissues by Chip-based Digital PCR
09:16

Detection of a CDH1 Rare Transcript Variant in Fresh-frozen Gastric Cancer Tissues by Chip-based Digital PCR

Published on: February 5, 2018

Area of Science:

  • Clinical proteomics
  • Biomarker research
  • Mass spectrometry

Background:

  • Biomarker discovery necessitates analyzing large patient sample sets for statistical significance.
  • High-throughput platforms like Surface Enhanced Laser Desorption/Ionization ProteinChip (SELDI) generate substantial mass spectrometric data.
  • Effective data analysis is crucial for identifying robust biomarker candidates.

Purpose of the Study:

  • To describe a typical workflow for processing and analyzing SELDI data.
  • To highlight the importance of appropriate software tools in mass spectrometry data mining.
  • To facilitate the identification of reliable biomarker candidates in clinical proteomics.

Main Methods:

  • Utilizing univariate analysis tools for SELDI data processing.
  • Employing unsupervised multivariate analysis tools for SELDI data interpretation.
  • Describing a standard workflow for mass spectrometry-based clinical proteomics.

Main Results:

  • A defined workflow for handling large-scale SELDI mass spectrometry data.
  • Demonstration of how software tools impact biomarker candidate quality.
  • Established methods for analyzing complex proteomic datasets.

Conclusions:

  • The described workflow enhances the analysis of SELDI data for biomarker discovery.
  • Appropriate software tool selection is critical for successful clinical proteomics.
  • This approach supports the identification of statistically significant biomarker candidates.