User: robjohn70000

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robjohn70000120
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Nigeria
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3 weeks, 5 days ago
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4 years, 3 months ago
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Posts by robjohn70000

<prev • 31 results • page 1 of 4 • next >
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How to map SNP rsids to genes and flanks
... Hi, I have a long list of human genes like this: ATR, BAK1, BAX ...... I will like to extract all snps in this region: 1KB of sequence (5') + gene + 1kb of sequence (3'). How can I easily carry out this extraction? Thanks ...
gene R sequence snp genome written 5 weeks ago by robjohn70000120 • updated 5 weeks ago by Emily_Ensembl17k
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How to filter Michigan genotype imputation results
... Hi, I have just downloaded imputation result files from the Michigan Imputation Server. The files include ".info.gz" and ".dosage.gz". I will like to filter the genotype results by R^2 > 0.8 to obtain good quality imputed genotypes. I'm new to this kind of analysis and not sure how to proceed fr ...
gwas rsq qc imputation written 10 months ago by robjohn70000120 • updated 8 months ago by GK161040
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Comment: C: Converting Affymtrix SNP data to plink and VCF formats
... Thanks so much for the info @Kevin Blighe. ...
written 10 months ago by robjohn70000120
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Comment: C: Finding mutations conferring antibiotic resistance
... Hi @sharmilla_487, Hope you've found a solution already and if not: What I did was download the arg-annot and CARD datasets and made a local blast database of each on my computer (linux). Then I blasted my sequences against the two databases and then applied some criteria to prune down the matched ...
written 10 months ago by robjohn70000120
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Converting Affymtrix SNP data to plink and VCF formats
... Hi, I have a raw Affymtrix SNP data that I will like to convert to Plink and VCF formats. The columns of my data are as follows: "Probe ID","Affy SNP ID", "dbSNP RS ID","Chromosome","Physical Position","Position End","Strand","ChrX", "Allele A","Allele B","Ref Allele","Alt Allele" etc. I'm ...
vcf gwas snp plink affymetrix written 11 months ago by robjohn70000120 • updated 9 weeks ago by Biostar ♦♦ 20
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Comment: C: Converting SNP array variant data to VCF
... Hi @jtftyl I have a similar problem to the one you tried to solve here months ago. I have a genotype report from affymetrix that I will like to convert to a VCF format. Were you able to generate the VCF files? If so, can you share how you did it. Thanks ...
written 11 months ago by robjohn70000120
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pathway analysis of differential expressions
... Hi, I'm new to proteomics and need to analyze some ".mzML" data obtained form LTQ Orbitrap Velos. I will like to  find perturbed pathways based on the differential expressions of  mutant/wild-type(control). Does anyone know what steps are necessary to do this kind of analysis either in R or another ...
proteomics R mass spectrometry written 3.3 years ago by robjohn70000120 • updated 3.3 years ago by Jean-Karim Heriche18k
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Pathway analysis using protein content (weight%)
... Hi, I'm new to proteomics. I wonder if it is possible to carry out pathway analysis on protein content (weight%) data from proteomics experiments. I have a list of genes and their corresponding protein content (weight%) for a number of conditions(control and test). I'm actually interested in the di ...
proteomics mass spectrometry written 3.4 years ago by robjohn70000120
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Comment: C: Alternative tools to DAVID pathway clustering analysis for lists of bateria gene
... Thanks for the info   ...
written 3.4 years ago by robjohn70000120
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Comment: C: Alternative tools to DAVID pathway clustering analysis for lists of bateria gene
... Thanks for the info   ...
written 3.4 years ago by robjohn70000120

Latest awards to robjohn70000

Popular Question 10 months ago, created a question with more than 1,000 views. For Turning off velvet scaffolding in VelvetOptimiser.pl Version 2.2.5
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Finding plasmids in the draft genome sequences of bacteria isolates
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Turning off velvet scaffolding in VelvetOptimiser.pl Version 2.2.5
Popular Question 3.3 years ago, created a question with more than 1,000 views. For finding missing genes in annotated draft genomes
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Does whole genome sequencing capture plasmids?
Popular Question 3.3 years ago, created a question with more than 1,000 views. For Alternative tools to DAVID pathway clustering analysis for lists of bateria genes
Student 3.3 years ago, asked a question with at least 3 up-votes. For Does whole genome sequencing capture plasmids?
Popular Question 3.4 years ago, created a question with more than 1,000 views. For Does whole genome sequencing capture plasmids?

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