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Questions related from Gurpreet Singh
Due Covid-19 I personally cannot visit a rural site for the collection of samples. But have found some great people who are happy to do the extractions on my behalf. I need to provide them with an...
20 November 2020 4,153 3 View
I have disease scores ranging from 0-4 (resistance to susceptibility) scored every month from 2015-2019. I was wondering if anyone could help me with designing a formula for calculating AUDPC to...
20 April 2020 8,529 0 View
I have a biparental population of Cacao for about 188 lines. I was initially thinking of doing QTL mapping, however, when I got the GBS data for my samples, I was informed by the sequencing...
19 February 2020 1,794 3 View
Hi there, I am trying to design allele specific primers for KASP assays to validate the SNPs from GWAS results. However, few of my SNP sequences have two or more SNPs only few base pairs apart and...
14 August 2019 9,830 4 View
Hi, I have phenotypic data for disease scoring (1-5) over three years for 184 cacao lines. The scoring was done in single environment over a period of three years. To calculate the mean, do I just...
03 August 2019 439 6 View
I am using Numeric SNP data for GWAS analysis in GAPIT. I am struggling with what value should I use for missing values in my SNP file. I have tried N or NA and the analysis doesnt work and it...
14 June 2019 339 3 View
I have genotype data scored as 0 and 1 for presence/absence of marker in the hapmap format. How can I convert it into input format for STRUCTURE software for Population structure analysis? Please...
04 June 2019 3,368 1 View
I have extracted DNA from cacao leaf tissue (freeze dried). I used CTAB buffer (5%) along with 1% B-mercaptoethanol and 3% PVP. I did the DNA extraction overseas and transported it as a pellet to...
17 January 2019 2,167 12 View
I have extracted DNA from Cacao leaf tissue using CTAB, chloroform isoamyl alcohol method. When I quantified my samples on Nandodrop they show a conc. of 300-800 (ng/ul) in 50 ul of TE buffer. The...
16 January 2019 2,248 14 View
I am trying to remove RNA contamination from my DNA samples. I gave RNAse treatment for DNA resuspended in 50 ul of TE buffer. After 1 hour of treatment I reprecipitated the DNA using 1/10 V of...
15 January 2019 5,888 2 View
I am extracting DNA overseas and need to bring it back to Australia. Is it better to ship the DNA samples using temperature controlled shipping from Fed ex? or I can bring them on a flight with me?
14 November 2018 8,054 1 View
I am a PhD student in Australia. I am going to collect leaf samples from cacao tree in Indonesia. Can any one suggest me how can I ship the leaf samples while retaining the viability. Purpose of...
28 October 2018 2,107 3 View
I have performed GWAS analysis for disease resistance trait using 15000 DArT markers. How can I identify what markers are significant according to their P-values. I have read in few articles they...
01 January 1970 5,024 4 View
