Zara Rafaque

5 Questions 7 Answers 0 Followers

Questions related from Zara Rafaque

- Can anyone tell me how to fill gaps in a draft genome assembly?

- I mapped my whole genome against the reference strain, and found 100 bp gaps between all the contigs? Is it something to be worried about? How can I overcome this shortcoming in my sequence?

03 March 2018 1,161 16 View

Can someone tell me what software/s I can use to compare virulence and resistance genes from my WGS file (contigs) with other closely related strains?

- I tried using BRIG but it doesn't give results unless you have multifasta files. - It should actually work fine with genebank file as well but it's somehow not working. - Your answers shall be...

03 March 2018 1,304 3 View

Usually how long the mammalian cell lines are incubated in 24 wells TCP (seeded with 5x10^5 cells/well), in order to perform invasion assays?

- I seed 24 wells TCP with a seeding density of 5x10^5 cells, and let them grow for 24 h.After 24 h they reach a cell density of approximately 70-80%. I infect them with my bacteria, and after...

02 February 2018 6,169 3 View

Can anyone tell me why the macrophages or monocytes are used to study intracellular survival of pathogens?

- Uropathogenic E.coli is an intracellular pathogen and invades bladder epithelial cells lines. I have come across numerous research papers where researchers have used bladder epithelial cells...

02 February 2018 3,116 3 View

Hello everyone! I am naive in NGS/bioinformatic. Can anyone tell what does it mean when the company says 1 of your strains has less than 30X coverage?

- Since I have very less background in bioinformatics, I find it hard to understand some of things. Looking forward towards kind replies. Thanking in anticipation :)

01 January 2018 4,704 5 View