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Pierce™ TMT11plex Yeast Digest Standard, 5 x 20 μg - FAQs

Pierce™ TMT11plex Yeast Digest Standard, 5 x 20 μg - FAQs

View additional product information for Pierce™ TMT11plex Yeast Digest Standard - FAQs (A40939, A40938)

6 product FAQs found

After running the Pierce TMT11plex Yeast Digest Standard, I observe low signal to noise ratio and poor quantitation accuracy for the Tandem Mass Tag (TMT) reporter ions. What do you recommend?

Here are some recommendations:

- Clean and recalibrate the mass spectrometry instrument using one of our Pierce Calibration Solutions (https://www.thermofisher.com/search/browse/category/us/en/600654).
- Verify settings for liquid chromatography (LC) acquisition methods.
- Fractionate TMT-labeled samples using the Pierce High pH Reversed-Phase Peptide Fractionation Kit (Cat. No. 84868) to reduce sample complexity.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

How do I use the Pierce TMT11plex Yeast Digest Standard to optimize my LC-MS acquisition parameters?

The Pierce TMT11plex Yeast Digest Standard (i.e., TKO standard) is a lyophilized yeast peptide mixture of four congenic strains labeled with TMT11plex reagents. It can be used to rapidly and accurately assess ion interference (co-isolation of multiple analytes of similar mass-to-charge) for TMT-based quantitative mass spectrometry proteomic analysis.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Which standard do you recommend using for Tandem Mass Tag (TMT) workflows?

We recommend using our Pierce TMT11plex Yeast Digest Standard (Cat. Nos. A40938, A40939) for LC-MS method optimization and for assessing system suitability for TMT-labeled samples.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Which standards and calibrants do you recommend using for assessing LC-MS system suitability?

Here are our recommendations:

- Pierce Peptide Retention Time Calibration Mixture (Cat. No. 88321) for LC system and gradient optimization
- Pierce BSA Protein Digest, MS grade (Cat. No. 88341), Pierce 6 Protein Digest, equimolar, LC-MS grade (Cat. No. 88342), and Pierce HeLa Protein Digest Standard (Cat. Nos. 88328, 88329) for "bottom up" LC-MS method optimization and LC-MS suitability assessment
- Pierce LC-MS/MS System Suitability Standard (7 x 5 Mix) (Cat. No. A40010) for assessing the gradient, sensitivity, and dynamic range of the LC-MS system for discovery and targeted peptide quantitative workflows
- Pierce TMT11plex Yeast Digest Standard (Cat. Nos. A40938, A40939) for assessing system performance for TMT-based quantitative workflows
- Pierce Intact Protein Standard Mix (Cat. Nos. A33526, A33527) for "top down" LC-MS method optimization and LC-MS suitability assessment

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

What type of mass spectrometer can I use for Tandem Mass Tag (TMT) analysis?

We recommend using high-resolution Orbitrap Tribrid (e.g., Fusion, Lumos, Eclipse), Orbitrap Exploris (e.g., 240, 480), or Q Exactive (e.g,. Plus, HF, HFX) series of instruments.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

What is the Pierce TMT11plex Yeast Digest Standard and what is its main purpose?

The Pierce TMT11plex Yeast Digest Standard is a lyophilized yeast peptide mixture of four congenic strains labeled with TMT11plex reagents. It serves as a standard for quality assessment of LC and MS data for samples labeled with Tandem Mass Tag (TMT) reagents.

Find additional tips, troubleshooting help, and resources within our Protein Assays and Analysis Support Center.