User: biotechnology415

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Posts by biotechnology415

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Will it be right to select a random threshold in GWAS to declare significant peaks?
... I run gwas for 7 traits of plant leaves, with 886930 snps, after that I got result, in which p-values and FDR adjusted P-values are given. Now i want set a threshold. Let suppose 0.05, to declare significant snps. I did it by bonferroni method, which is too conservative, and the threshold would be 0 ...
genome R snp gene sequencing written 11 days ago by biotechnology4150
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Comment: A: Is there any update about adding more reference genomes of plant species on Ense
... Thank you so much for your quick response. ...
written 6 weeks ago by biotechnology4150
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Is there any update about adding more reference genomes of plant species on Ensemble?
... I have been trying snp annotation on ensemble. But as far as I tried and observed, it has reference genomes of only few species of a particular crop. In my case, I am trying to annotate snps of Gossypium hirsutum , but when I searched on the database, only reference sequences of Gossypium raimondii ...
genome sequence snp sequencing written 6 weeks ago by biotechnology4150
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Comment: A: How to annotate the snps we get after GWAS?
... Thank you so much for your quick response ...
written 6 weeks ago by biotechnology4150
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How to annotate the snps we get after GWAS?
... I did gwas on a plant data. As you know after running gwas model, we can get some peak snps. As the results of gwas are in csv format, and it contains information about P-values, effects, chromosome positions and snp ID etc. of the significant snps. Now i want to do the annotation of these peak snps ...
genome sequence snp sequencing written 6 weeks ago by biotechnology4150
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GWAS on different forms of phenotype variable.
... Dear all, These days, i am doing GWAS and read a lot of literatures about the standards of gwas followed by researchers. The literature is flooded with different methods of GWAS. So far, I read different types of GWAS articles, like in humans, plants, animals etc. But my field is related to plant s ...
genome R snp written 8 weeks ago by biotechnology4150

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