Proteomics services

PNI aims to catalog the mass spectrometry and proteomics services available in every country. Researchers can pay a specified amount for sample analysis by mass spectrometry, peptide synthesis, antibody generation and other services.

Please note: PNI has cataloged the available resources and has no relation whatsoever with the listed organizations. Send an e-mail inquiry to these organizations for the price list.

INDIA

- Centre for Cellular and Molecular Platforms (C-CAMP), Bangalore
http://www.ccamp.res.in/mass-spectrometry-services
http://www.ccamp.res.in/glycomics-and-glycoproteomics

- Shantani Proteome Analytics Pvt. Ltd., Pune
http://www.shantani.com/Services%20Products.htm

-Allele Life Sciences (P) Ltd., Noida
http://www.allelelifesciences.com/Proteomics-Services.html

-SGS Group, Life Sciences Division, Ahmedabad
http://www.sgsgroup.in/en-GB/Life-Sciences/Laboratory-Services/Protein-and-Peptide-Analysis/Proteomics-Services.aspx

-TechnoConcept (India) Pvt. Ltd., New Delhi
http://www.technoconcept.co.in

-Sandor Protemics Pvt. Ltd., Hyderabad
http://www.sandor.co.in/

-The Centre for Genomic Application, New Delhi
http://www.tcgaresearch.org/service_proteomics.htm

-Vimta Labs Ltd., Hyderabad
http://www.vimta.com/html/molbio/index.html

-SciGenom Labs, India
 http://www.scigenom.com/mass-spectrometry

Books on Proteomics

In this section, we will keep updating books on proteomics.

Please note: The books are not arranged according to popularity.

• Introducing Proteomics: From concepts to sample separation, mass spectrometry and data analysis by Josip Lovric

•  Introduction to Proteomics: Principles and Applications (Methods of Biochemical Analysis) by N. C. Mishra

•  Discovering Genomics, Proteomics and Bioinformatics (2nd Edition) by A. Malcolm Campbell

•  Proteomics in Practice: A Guide to Successful Experimental Design by Reiner Westermeier

•  Principles of Proteomics (Advanced Texts) by Richard M. Twyman

•  Introduction to Proteomics: Tools for the New Biology by Daniel C. Liebler

• Data Mining for Genomics and Proteomics: Analysis of Gene and Protein Expression Data (Wiley Series on Methods and Applications in Data Mining) by Darius M. Dzuida

•  Proteomics: A Cold Spring Harbor Laboratory Course Manual by Andrew J. Link

•  Proteomics: Methods and Protocols (Methods in Molecular Biology) by Jörg Reinders

•  Proteomics byTimothy Palzkill

•  Introduction to Proteomics (Wiley Series on Mass Spectrometry) by Agnieszka Kraj

•  Quantitative Proteomics by Mass Spectrometry (Methods in Molecular Biology) by Salvatore Sechi

Mass spectrometry search algorithms

A protein sample when subjected to tandem mass spectrometry generates MS/MS spectra which are signatures of ions generated by the fragmentation of peptides. These MS/MS spectra can be compared against protein databases to identify proteins using computational algorithms known as " search algorithms".

There are many popular search algorithms, both commercial and free, available for use.

1. Mascot  - Paid, a free version with limited functionality is available on the website.
http://www.matrixscience.com/

2. SEQUEST - Paid, available through the distributor's website
http://www.thermoscientific.com/ecomm/servlet/productsdetail?productId=11961811&groupType=PRODUCT&searchType=0&storeId=11152&from=search

However, free implementations of the SEQUEST algorithm are available which will discussed in the future.

3. OMSSA- Free

http://pubchem.ncbi.nlm.nih.gov/omssa/

4. X! Tandem - Free

http://www.thegpm.org/tandem/index.html

Videos on proteomics

PNI has compiled a list of videos on proteomics from youtube.com

1. What is Proteomics?

2. SDS-PAGE

3. Protein sequencing

4. N Terminal and C Terminal amino acid analysis

5. Mass spectrometry

6. Protein chips

7.Structural proteomics

8.Chromatography

9. 2D-gel electrophoresis

10. Applied Proteomics

Journal of Proteome Research podcasts

Journal of Proteome Research publishes audio podcasts free-of-charge. These podcasts highlight some of  articles and new pieces published in the journal.

The link to the past JPR podcasts is as follows:
http://pubs.acs.org/page/jprobs/audio/index.html

You can subscribe to these podcasts through RSS by using the following link:
http://feeds.feedburner.com/JPRPodcasts

Proteomics

Proteomics is a field in science devoted to large-scale structural and functional characterization of proteins. Why is it important? Studying DNA and mRNA can give you only so much information. Studying proteins is the next step because proteins are the actual chemical messengers in a biological system.

Proteomics is much more complicated. As the article in Wikipedia says:

"After genomics and transcriptomics, proteomics is the next step in the study of biological systems. It is more complicated than genomics because an organism's genome is more or less constant, whereas the proteome differs from cell to cell and from time to time. Distinct genes are expressed in different cell types, which means that even the basic set of proteins that are produced in a cell needs to be identified.
In the past this phenomenon was done by mRNA analysis, but it was found not to correlate with protein content.It is now known that mRNA is not always translated into protein, and the amount of protein produced for a given amount of mRNA depends on the gene it is transcribed from and on the current physiological state of the cell. Proteomics confirms the presence of the protein and provides a direct measure of the quantity present."

Source: http://en.wikipedia.org/wiki/Proteomics


So why this blog? Proteomics is becoming popular day by day. Starting off with proteomics research is difficult because you need an in-house expert or depend on external help. Resources are scattered around the net and this blog aims to make an index of resources on proteomics and it's work-horse- mass spectrometry.

Tutorials

Mass spectrometry is one of the work horses of mass spectrometry.
Ionsource.com provides tutorials and resources on mass spectrometry, particularly useful for beginners.

http://www.ionsource.com/