Arif Ashraf

5 Questions 7 Answers 0 Followers

Questions related from Arif Ashraf

Building reference genome for snpEff?

I’ve been having following issues while building my reference genome in snpEff. 1. It is suggested to change the configuration file. No matter, where I’m putting the information about my...

09 September 2019 359 1 View

What is the easier way to obtain Maize HapMap file?

I've been using Zea_mays.B73_RefGen_v4.dna.toplevel as reference genome for my analysis. At the same time, I need to use maize HapMap file? Does anyone used B74 RefGenv4 and HapMap3? I'm having...

09 September 2019 2,748 3 View

What is the fastest way to load SRA file in Galaxy?

I've been aiming to do BSA-Seq analysis and was trying to upload 4 SRA files through accession-based approach, according to Galaxy it's fasted compared to use FTP or directly load the data from...

06 June 2019 6,139 1 View

Is anyone having problem of cloning desired gene in pENTR/SD/D-Topo, where fragment of gene is inserted instead of full length?

I've been trying to clone a 4.8kb Arabidopsis gene in pENTR/SD/D-Topo. Getting enough amount of single colonies after transformation. After screening colonies, whenever I'm going for plasmid...

05 May 2017 6,148 0 View

How EMS mutation confers gain of function (GOF) of a gene in Arabidopsis thaliana?

We have enough examples for both T-DNA insertion and EMS mutation induced gain of function (GOF) or over expression (OE) of particular genes in Arabidopsis thaliana. I was looking for literature...

04 April 2016 8,983 0 View