User: tlorin

gravatar for tlorin
tlorin230
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Location:
Switzerland
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4 weeks, 1 day ago
Joined:
3 years, 2 months ago
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t***************@orange.fr

Posts by tlorin

<prev • 58 results • page 1 of 6 • next >
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Comment: C: Fungi genomes: which database should I use?
... Indeed it's not very easy to access this data. > You could extract all sequences assigned a fungal TaxID (4751) and > blast against those sequences. Could you elaborate on this? Do you mean in NCBI? Thanks! ...
written 5 weeks ago by tlorin230
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Comment: C: Fungi genomes: which database should I use?
... (By the way, I have found the web interface of JGI to be VERY slow when blasting on the whole fungi lineage.) ...
written 5 weeks ago by tlorin230
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Fungi genomes: which database should I use?
... Hello, I don't work on fungi - at all. However, it happens that I have to dive into this lineage to understand the evolution of a gene that I thought would be specific to animals, but is not. I have found many resources that seem to harbor genomic resources on fungi. I can think of the [JGI portal ...
genome ensembl jgi fungi blast written 5 weeks ago by tlorin230 • updated 1 day ago by Biostar ♦♦ 20
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Comment: C: WGCNA with time series data
... Maybe this? https://www.researchgate.net/file.PostFileLoader.html?id=58c79b843d7f4bfe197f1e4a&assetKey=AS%3A471712719478784%401489476484783 ...
written 4 months ago by tlorin230
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Comment: C: WGCNA with time series data
... Could you please provide the link to this tutorial? I cannot find it. ...
written 4 months ago by tlorin230
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Comment: C: filter out fasta File by pattern
... See also this post: https://www.biostars.org/p/146194/ ...
written 5 months ago by tlorin230
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Comment: C: Minimal TPM threshold for qPCR measure of gene expression
... Then, which TPM would be a "piece of cake"? ;-) In other words, if you had to advise someone doing qPCR in your lab, would you consider a TPM of 2/5/10 as relevant for first test? (Keeping in mind that this will be highly dependent on the factors you mentioned above) ...
written 6 months ago by tlorin230
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Comment: C: Minimal TPM threshold for qPCR measure of gene expression
... @ATPoint do you mean that the detection would greatly vary from one gene to another and from one experiment to another? (Sorry, I'm not familiar with molecular biology yet...). Hence, I presume the TPM would not "mean" much and a gene with a TPM of 0.1 could be detected by qPCR while a gene with a T ...
written 6 months ago by tlorin230
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Comment: C: Minimal TPM threshold for qPCR measure of gene expression
... To be sure that I correctly understand, with a TPM threshold of **1** I would (roughly) be able to detect candidate gene expression with ~50 ng total RNA? ...
written 6 months ago by tlorin230
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Minimal TPM threshold for qPCR measure of gene expression
... Hello, I am not a molecular biologist and I am mostly doing RNA-Seq. I want to find marker genes based on RNA-Seq results and I have to discuss with people at the bench about candidate genes would be good markers. These genes should thus have a measurable expression using qPCR. I am wondering what ...
tximport tpm qpcr rna-seq kallisto written 6 months ago by tlorin230

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Student 6 weeks ago, asked a question with at least 3 up-votes. For Difference between heatmap using Euclidian distance and Poisson distance
Popular Question 3 months ago, created a question with more than 1,000 views. For Interpreting sliding windows in Ka/Ks analyses
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