MIles and Praneeth will be presenting the following papers:
Quantitative proteomics (iTRAQ or TMT labeling) Chen M, Zhang F, Chen B, Lau C, Xu K, Tong T, Huo C, Han Q, Su T, Kwan HY. Omics approach to reveal the effects of obesity on the protein profiles of the exosomes derived from different adipose depots. Cell Mol Life Sci. 2022 Oct 28;79(11):570. doi: 10.1007/s00018-022-04597-4. PMID: 36306016. Giambruno R, Mihailovich M, Bonaldi T.Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World. Front Mol Biosci. 2018, Nov 8;5:90. doi: 10.3389/fmolb.2018.00090. eCollection 2018. Jürgen Cox and Matthias Mann, Quantitative, high-resolution proteomics for data-driven systems biology. Annu Rev Biochem. 2011;80:273-99. doi: 10.1146/annurev-biochem-061308-093216.
16 Comments
HUIXIAN QIU
4/6/2024 01:06:38 pm
For the figure 4 of paper "TMT-Based Proteomics Analysis Revealed the Protein Changes in Perirenal Fat from Obese Rabbits": what are the further implications of large protein percentage involved in single-organism process and high ratio in nitrogen metabolism?
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Dianna Xie
4/7/2024 01:52:04 pm
In Chen et al.'s article, how to decide the labeling for different peptides for iTRAQ-based quantitative proteomics?
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Joely
4/8/2024 07:14:18 pm
In the primary paper for this week, they note that ARF1 is highly upregulated in in SAT-Exos and VAT-Exos but not EAT-Exos. Why do you think this is?
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Maggie Chrostowski
4/8/2024 09:30:55 pm
The article “Omics approach to reveal the effects of obesity on the protein profiles of the exosomes derived from different adipose depots” discusses how the mice were given a high-fat diet for 8 weeks to induce obesity. Was there a baseline weight the mice had to be to ensure they were considered obese?
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Brooke Fuerstenau
4/10/2024 08:23:06 pm
In the main article they talked about the protein-protein interactions and the differences in regulation between the SAT-Exos vs the EAT-Exos and VAT-Exos. Their results were that obesity had differential effects on the exosomal proteins in these exosomes, why is this the case/how do the mechanisms of these regulations change between different adipose tissues?
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Sara Fritz
4/10/2024 09:38:59 pm
In the TMT-proteomics paper, they chose to look at protein differences between WAT for the HFD and SND, why did the researchers choose to look at WAT? What do they expect to learn from WAT proteins instead of BAT?
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Julia Carey
4/11/2024 12:06:11 am
Why can chemical labeling not be used for in vivo studies?
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Rohan
4/11/2024 12:14:14 am
In the article "Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World" they mention that iTRAQ can be used on up to 8 isobaric tags- What is the reason that it is only limited to 8?
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Rebecca Wright
4/11/2024 09:20:02 am
In the Chen et al. paper, there was a lot of discussion about the B6/J‑Rab27a‑Cas9‑KO mice used in the study. Can you explain why they chose to knock out the genes that they did?
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4/11/2024 10:19:53 am
Considering the indirect effects of ncRNAs on protein levels, how does MS-based proteomics distinguish between direct and indirect targets of ncRNAs?
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Kate Stack
4/11/2024 11:06:14 am
In the primary paper I am curious as to what the author's reasoning was for selecting Rab27a KO mice? If a different gene involved in exosomal secretion was selected, would the result be different?
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Samuel Kivi
4/11/2024 11:22:51 am
Could the different expressions of proteins in subcutaneous adipose tissue from other adipose tissues be utilized in weight loss or cosmetic surgery procedures (such as with medication that targets some adipose proteins but not others)?
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perla larios
4/11/2024 11:48:37 am
For the adipose paper how do you think te results would vary on non-caucasian? or caucasians from other locations with different eating habits.
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Michelle Conte
4/11/2024 11:51:51 am
Is there a difference in the accuracy and quality of labeling techniques between in-vivo, in-vitro, and SILAC?
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Madeline Blum
4/11/2024 11:52:05 am
In Chen et al., they conclude that exosomes from subcutaneous adipose tissue has the most affect on metabolism proteins in their mouse mode. They suggest that exosome therapeutic approaches focusing on these tissues. Do you know of any approaches suggested in light of this article?
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Zoe Zwick
4/11/2024 12:00:07 pm
How can this information about differential expression of adipocyte exosomes be used in clinical applications?
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