Friday, March 15, 2013

'Experiment Control' is a valuable tool

There are so many factors that can make database search engines fail to produce a decent result. Today I saw such an interesting case.

A user send in a dataset generated from Orbitrap instrument. When he used PEAKS to analyze the data, surprisingly, he only got very few PSMs. I examined the figures in the 'Experiment Control' section in the 'Summary View' and noticed that the precursor mass error distribution of the PSMs is strange. So I increased the parent ion error tolerance from 10ppm to 20ppm and got very good result. One third of the spectrum have been identified under 1% FDR.

The figures in the 'Summary View' sometimes can help identify the problem when the search result is not ideal. In this case, the instrument is not well calibrated.

27 comments:


  1. You write this post very carefully I think, which is easily understand to me. Not only this, other post is also good. As a newbie this info is really helpful for me. Thanks to you.
    tally training
    Tally Training in Chennai
    Tally ERP 9 Training
    Tally Course
    tally classes
    Tally institute in Chennai
    Tally Training institute in Chennai
    Tally course in Chennai

    ReplyDelete
  2. Nice Blog , Blog Information is very helpful for us. Thank You For Submitting this Blog.
    Digital Marketing Course in Kolkata

    ReplyDelete
  3. A client send in a dataset created from Orbitrap instrument. At the point when he utilized PEAKS to break down the information, shockingly, he just got not very many PSMs.Do My Assignment I inspected the figures in the 'Test Control' segment in the 'Rundown View' and saw that the forerunner mass mistake dispersion of the PSMs is odd. So I expanded the parent particle blunder resistance from 10ppm to 20ppm and got awesome outcome. 33% of the range have been recognized under 1% FDR.

    ReplyDelete
  4. Excellent blog on experiment control i finding the keyword from your blog to improve our vocable because working as a law assignment experts to the uk students those want work through outsource.

    ReplyDelete
  5. For some understudies, this term can end up being a piece irritating yet hard to perform. An instructor can convey any sort of assignment to understudies. Like, it very well may be as an exposition, lab report, contextual analysis, custom essay writing service uk paper, or a few different arrangements. Generally, they end up being more diligently for understudies perusing in universities or the people who way to deal with higher auxiliary levels in the schools.

    ReplyDelete
  6. The essay services are going beyond the experimental control system that support human

    ReplyDelete
  7. I read your post. This experiment is valuable too. It's useful information. Thanks for sharing your thoughts with us. Now it's time to get Vfix services https://www.vfixphonesandtech.com/ for more information.

    ReplyDelete
  8. The Mauvetree brown men leather jacket is a staple piece in your wardrobe. It's made from top quality leather and will last you for many years to come.

    ReplyDelete
  9. This comment has been removed by the author.

    ReplyDelete
  10. The author regrets not having access to specific reviews for "peaksblog.bioinfor" or other websites beyond September 2021. They suggest using online search engines, review websites, or forums to find up-to-date information and reviews about a specific product, service, or website, as they cannot access specific reviews beyond this date.abogado flsa en virginia

    ReplyDelete
  11. The speaker acknowledges that they do not have specific information about "bioinfor" reviews in their training data, as of September 2021. They suggest that "bioinfor" may refer to a company, product, or service, but cannot provide detailed information or reviews without more context. If you have specific questions or need information, they will try to assist based on the available information.commercial truck accident lawyers

    ReplyDelete
  12. "Experiment Control" is a valuable tool for researchers and scientists, offering a user-friendly interface and comprehensive features that streamline the process of conducting experiments. Its real-time data tracking and analysis enhance efficiency and accuracy. The tool's capabilities can be further enhanced by providing examples of successful experiments and mentioning potential areas for improvement or updates in development.
    New York Marriage Laws Divorce

    ReplyDelete
  13. Short but informative post. Keep posting more good informative blogs. Lawyer for Tax Fraud

    ReplyDelete
  14. The PEAKS Blog is a well-researched and engaging platform that provides valuable insights into various topics. It caters to tech enthusiasts and business professionals, offering a diverse range of topics. The blog's quality is enhanced by real-life examples and practical advice, making it a valuable resource for staying informed and gaining a deeper understanding of various subjects.Nueva Jersey Violencia Doméstica

    ReplyDelete
  15. The PEAKS Blog is a dynamic platform providing valuable resources for personal and professional development. It features insightful articles, thought-provoking discussions, and practical tips. Its user-friendly interface and visually appealing design enhance the reading experience, making it a go-to destination for continuous growth.Citación con Aviso Divorcio Nueva York

    ReplyDelete
  16. Accidente de Camionero ConductorThe user's case highlights the importance of precursor mass error tolerance in database search engines. A minor adjustment from 10ppm to 20ppm resulted in a significant improvement in the results. The user's initial observation of few PSMs despite using PEAKS software raised a red flag, prompting further investigation. The 'Experiment Control' section in the summary view revealed clues about the peculiar precursor mass error distribution. Increasing the parent ion error tolerance revealed hidden identifications, with one third of the spectra successfully identified at an impressive 1% FDR.

    The case underscores the sensitivity of database search engines to parameter settings, with small adjustments like error tolerance impacting the quality and quantity of identifications. The user's proactive examination of the figures in the 'Experiment Control' section demonstrates the importance of user vigilance and hands-on involvement in the data analysis process. The mention of 1% FDR as a benchmark for identified spectra indicates a commitment to maintaining high-quality results and minimizing false positives.

    The successful resolution of the issue emphasizes the need for users to possess a good understanding of the tools they are using and the ability to troubleshoot unexpected results. The adjustment in precursor mass error tolerance affects the quantity of identifications and the accuracy of data interpretation.

    ReplyDelete
  17. The 'Experiment Control' section in the summary view revealed clues about the peculiar precursor mass error distribution. Wedding venue Montreal

    ReplyDelete
  18. The user's initial observation of few PSMs despite using PEAKS software raised a red flag, prompting further investigation. pallets delivery montreal

    ReplyDelete
  19. The PEAKS Blog is a valuable resource for information and inspiration, covering a wide range of topics. The content is expertly crafted, providing meaningful perspectives. The blog consistently delivers thought-provoking and informative articles, making complex topics accessible. It stands out for its relevance and timeliness, offering fresh perspectives on industry trends and expert interviews. The team's dedication to delivering value to their audience makes it a must-follow blog. The blog's blend of informative content and engaging writing makes it a must-follow for readers seeking valuable insights.
    northern virginia personal injury lawyers

    ReplyDelete
  20. "Experiment Control" proves to be an invaluable tool for businesses seeking to optimize their strategies. The article delves into the significance of controlled experiments, providing a clear understanding of their impact on decision-making and performance evaluation. The practical examples and step-by-step guidance make it accessible for both beginners and experienced professionals. The emphasis on data-driven insights adds credibility to the effectiveness of experiment control. In summary, a well-articulated and insightful piece that underscores the importance of experimentation in refining business approaches. Best Divorce Lawyer in New York 10016

    ReplyDelete
  21. "Experiment Control" is a crucial tool in research, ensuring precision and reliability in scientific investigations. It minimizes variables and maintains consistency, enhancing the credibility of experimental outcomes. Robust experiment control mechanisms are essential in scientific inquiry, highlighting the meticulous process that underpins the reliability and validity of experimental results.
    Desestimar Orden Protección Nueva Jersey

    ReplyDelete
  22. Discover the ultimate destination for sports enthusiasts and fashion aficionados alike with our engaging blog. From insightful commentary on the latest games to trendsetting style tips, we cover it all. Plus, don't miss out on our exclusive feature discussing the iconic golden state warriors championship jacket. Explore, engage, and stay informed with our dynamic content.

    ReplyDelete
  23. Experiment Control is a valuable tool for researchers and scientists, offering an intuitive interface and robust features for designing, managing, and analyzing experiments. It tracks variables and control conditions, ensuring research outcomes' integrity and reliability, enabling efficient experiment conduct while maintaining accuracy and consistency.
    estate lawyers

    ReplyDelete