User: parveenkayenat

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Posts by parveenkayenat

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Comment: C: Regarding Liftover and results
... No, I use NCBI remapping. ...
written 5 weeks ago by parveenkayenat0
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Regarding Liftover and results
... Hi, I perform the liftover and get the results of changed coordinate but i am not sure whether i got the correct results. Below is the glimpse of submited file and the result file. I put the parameters, Source assembly = GRCh37.p13 :: Primary Assembly and Target assembly = GRCh38.p11 :: Primary Ass ...
genome assembly snp gene written 5 weeks ago by parveenkayenat0 • updated 5 weeks ago by Pierre Lindenbaum134k
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Comment: A: matching relationship between the old and new coordinate lists after liftover
... Hi, I perform the liftover and get the results of changed coordinate but i am not sure whether i got the correct results. Below is the glimpse of submited file and the result file. I put the parameters, Source assembly = GRCh37.p13 :: Primary Assembly and Target assembly = GRCh38.p11 :: Primary Ass ...
written 5 weeks ago by parveenkayenat0 • updated 5 weeks ago by Ram32k
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Comment: C: Meta-analysis of two datasets.
... I am using NCBI remapping for liftover. But when i put "1:752566:A:G" as an input, it shows that error in format and when i put "1:752566" then it works. So, if it work without the allele information then how do i correlate b37 assembly to b38? Is the allele information is same in build 37 and build ...
written 5 weeks ago by parveenkayenat0
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Comment: C: Meta-analysis of two datasets.
... The data is the result of GWAS of quatitative traits. I want to perform meta-analysis on those two datasets and see the reaction of genes in statistical way. Without performing lifover, is it possible to run meta-analysis on two different assemblies datasets? Thank you in advance ...
written 5 weeks ago by parveenkayenat0
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Meta-analysis of two datasets.
... Hello, I would like to perform meta-analysis on two datasets but both the datasets has different genome assembly, that is, one dataset has genome build 37 and another dataset has genome build 38. How do i perform meta-analysis? Is there any other software to perform meta analysis on different assemb ...
gene assembly snp written 6 weeks ago by parveenkayenat0
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Comment: C: Genome wide association studies (GWAS) Meta-analysis
... In Case-control study, effect size is mentioned in the terms of OR(odds-ratio) and in quantitative traits, effect size is mentioned in the terms of BETA. So if you have beta column then it is your effect size. If you use plink for GWAS then these are the terms for effect size. ...
written 6 weeks ago by parveenkayenat0

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