User: mimA
mimA • 30
- Reputation:
- 30
- Status:
- New User
- Location:
- European Union
- Last seen:
- 6 months, 3 weeks ago
- Joined:
- 7 years, 2 months ago
- Email:
- m************@gmail.com
about me
Posts by mimA
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... Hi all,
I was wondering how to get a GTF for circRNAs. Does the full GTF from Ensembl (link below) have all coding and non-coding biotypes.
ftp://ftp.ensembl.org/pub/current_gtf/homo_sapiens/
Thanks a lot!
...
written 20 months ago by
mimA • 30
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... ok will do that, thank you! ...
written 2.4 years ago by
mimA • 30
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... I have mass spec data which represents proteins in quan values. These values are quite big (in thousands ex. 1000, 1300 2200 and so on). I have been told by our proteomics facility that no further normalisation is required for this data. However, since we wanted expression levels relative to our con ...
written 2.4 years ago by
mimA • 30
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... Thanks for your answer Petr. The only thing I'm concerned about is whether its acceptable to use ratios for example like I calculated by dividing with control and use those numbers directly to calculate p-values for example using something like limma?In this way the levels of proteins in each treatm ...
written 2.4 years ago by
mimA • 30
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... Thanks for your answer Petr. The only thing I'm concerned about is whether its acceptable to use ratios for example like I calculated by dividing with control and use those numbers directly to calculate p-values for example using something like limma?In this way the levels of proteins in each treatm ...
written 2.4 years ago by
mimA • 30
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... Thanks a lot for your reply Shunyip. But I'm just wondering z-score is calculated as (x-mean)/sd. Here x then becomes log2FC values so i end up with 2 z-scores for each protein again ...
written 2.4 years ago by
mimA • 30
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... Hello all,
I have a question that I can't seem to figure out. I have protein data for 2 different treatments (3 samples each) and only 1 control sample. I want to run some statistics to find differences between the 2 treatment conditions but using the control because it is important for this experi ...
written 2.4 years ago by
mimA • 30
• updated
2.4 years ago by
Petr Ponomarenko • 2.6k
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Comment:
C: Exon Array Analysis Tools
... Hi Nathan, Just wanted to ask does this do gene-level analysis on exon arrays? Thanks! ...
written 2.5 years ago by
mimA • 30
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... ok, will use Limma, thank you!! ...
written 2.6 years ago by
mimA • 30
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... Hi Devon, Thanks for your answer! You were right there was an error in my code somewhere. I fixed it so now the 2 values are not the same. About your comment on using Limma. I didn't exactly follow. You don't think using just a simple t-test and then adjusting for multiple comparisons is advisable? ...
written 2.6 years ago by
mimA • 30
Latest awards to mimA
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17 months ago,
created a question with more than 1,000 views.
For Calculating z-scores and p-values from ratios
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17 months ago,
created a question with more than 1,000 views.
For p-value and adjusted p-value exactly the same
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3.2 years ago,
created a question with more than 1,000 views.
For Mapping Chicken Protein Names To Corresponding Gene Names
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