User: always_learning
always_learning • 1.1k
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Posts by always_learning
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... Are you looking for a PAM50 Signature? You may need to find genes used for PAM50 signature analysis? ...
written 4 months ago by
always_learning • 1.1k
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... Thanks Kevin!
I didn't understand point 3 properly.
Do you have some reference paper for above so it will be easier for me to follow?.
Thanks
...
written 6 months ago by
always_learning • 1.1k
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... This particular cancer is a very rare type so we are trying to see if we can found some gene that may have some role in this using transcriptome data. We have performed somatic calling also and wondering if we can integrate data SNP data with RNA seq also. ...
written 6 months ago by
always_learning • 1.1k
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... Dear All,
I am working on a project related to cancer. I have RNASeq data only for tumor samples and matched Tumor/normal samples for WES data. I have performed WES calling on Tumor/Normal Sample.
Now I wanted to analyze RNASeq data.
Since I don't have matched Normal Control data for RNASeq so I ...
written 6 months ago by
always_learning • 1.1k
• updated
6 months ago by
Kevin Blighe ♦ 71k
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Comment:
C: GISTIC input parameters.
... Sorry for naive questions but what do you mean by reverse overlap? ...
written 6 months ago by
always_learning • 1.1k
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363
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Comment:
C: low genomic inflation factor
... Anyone can shed some light on this? ...
written 7 months ago by
always_learning • 1.1k
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... Which one the correct one?
lambda <- median(chisq) / qchisq(0.5,1)
or
lambda <- median(chisq) / qchisq(0.456,1)
...
written 7 months ago by
always_learning • 1.1k
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296
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... Hi!
What's the usual P-value cutoff for gene Based Association Burden test? I am running Linear Regression with Genes and associated phenotypes. I am using good quality nonsynonymous mutations for the Burden test.
Regards,
...
written 7 months ago by
always_learning • 1.1k
0
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1.1k
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... yes Its manta. Primarily I am using MANTA for that. ...
written 12 months ago by
always_learning • 1.1k
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1.1k
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... Can you please help on this ? ...
written 12 months ago by
always_learning • 1.1k
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For Error with SNPSift while using dbNSFP2.9.txt.gz for annotation
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11 months ago,
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13 months ago,
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For getting GQ values with VCF using SAMTOOLS Mpileup
Scholar
15 months ago,
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For A: Biomart error while convertint transcript ID.
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17 months ago,
asked a question that was upvoted at least 5 times.
For Annotation for SV and CNV
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